Variant report

Variant	rs3739943
Chromosome Location	chr9:139776194-139776195
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr9:139776013-139777381	K562	blood:	n/a	n/a
2	RELA	chr9:139776030-139777377	GM18951	blood:	n/a	n/a
3	CREB1	chr9:139776027-139777422	A549	lung:	n/a	n/a
4	POLR2A	chr9:139776108-139777490	GM12878	blood:	n/a	n/a
5	POLR2A	chr9:139776155-139777494	PANC-1	pancreas:	n/a	n/a
6	MAX	chr9:139776106-139776757	K562	blood:	n/a	n/a
7	BCL3	chr9:139776137-139777477	A549	lung:	n/a	chr9:139776299-139776312
8	ATF2	chr9:139776134-139776586	GM12878	blood:	n/a	n/a
9	POLR2A	chr9:139776162-139776744	GM12892	blood:	n/a	n/a
10	POLR2A	chr9:139776083-139777444	GM12878	blood:	n/a	n/a
11	PML	chr9:139776053-139777470	GM12878	blood:	n/a	n/a
12	POU2F2	chr9:139776063-139776600	GM12891	blood:	n/a	n/a
13	POLR2A	chr9:139776141-139777342	Raji	blood:	n/a	n/a
14	RELA	chr9:139776072-139777430	GM12891	blood:	n/a	n/a
15	MAX	chr9:139776092-139777507	HepG2	liver:	n/a	chr9:139777125-139777135
16	MAX	chr9:139775782-139777513	A549	lung:	n/a	chr9:139777125-139777135
17	ZNF143	chr9:139776106-139777322	GM12878	blood:	n/a	chr9:139776586-139776604
18	TAF1	chr9:139776169-139776544	GM12878	blood:	n/a	n/a
19	TFAP2C	chr9:139776071-139777417	Hela-S3	cervix:	n/a	n/a
20	MAX	chr9:139775943-139777513	A549	lung:	n/a	chr9:139777125-139777135
21	TFAP2A	chr9:139776055-139777396	Hela-S3	cervix:	n/a	chr9:139776218-139776229 chr9:139776218-139776229 chr9:139776218-139776229 chr9:139776063-139776073 chr9:139776185-139776197 chr9:139776218-139776229 chr9:139776063-139776073 chr9:139777163-139777172 chr9:139777196-139777208 chr9:139776063-139776073 chr9:139777198-139777213 chr9:139776063-139776073 chr9:139777043-139777058
22	MAZ	chr9:139776150-139776388	HepG2	liver:	n/a	n/a
23	MTA3	chr9:139776068-139777359	GM12878	blood:	n/a	n/a
24	TBL1XR1	chr9:139776127-139776625	GM12878	blood:	n/a	n/a
25	YY1	chr9:139776185-139776577	GM12892	blood:	n/a	n/a
26	MXI1	chr9:139775777-139777422	IMR90	lung:	n/a	chr9:139777125-139777134
27	POLR2A	chr9:139776082-139777490	Hela-S3	cervix:	n/a	n/a
28	RCOR1	chr9:139776183-139776496	K562	blood:	n/a	n/a
29	SP1	chr9:139776095-139776609	GM12878	blood:	n/a	chr9:139776178-139776192
30	NFIC	chr9:139776098-139776788	GM12878	blood:	n/a	n/a
31	YY1	chr9:139776172-139776568	GM12878	blood:	n/a	n/a
32	BHLHE40	chr9:139776170-139776443	K562	blood:	n/a	chr9:139776327-139776343 chr9:139776299-139776315
33	POLR2A	chr9:139776185-139777352	GM18951	blood:	n/a	n/a
34	RUNX3	chr9:139776101-139776668	GM12878	blood:	n/a	n/a
35	MAX	chr9:139776155-139777363	GM12878	blood:	n/a	chr9:139777125-139777135
36	POLR2A	chr9:139775849-139777510	K562	blood:	n/a	n/a
37	EBF1	chr9:139776155-139777331	GM12878	blood:	n/a	chr9:139776495-139776506 chr9:139776496-139776506 chr9:139776897-139776906 chr9:139776494-139776504 chr9:139776495-139776504
38	POLR2A	chr9:139776028-139777517	GM12892	blood:	n/a	n/a
39	ELF1	chr9:139776151-139776452	K562	blood:	n/a	n/a
40	POLR2A	chr9:139776073-139776439	HepG2	liver:	n/a	n/a
41	MYC	chr9:139776168-139776335	K562	blood:	n/a	n/a
42	POLR2A	chr9:139776082-139777380	GM19099	blood:	n/a	n/a
43	SP1	chr9:139776106-139777569	A549	lung:	n/a	chr9:139777232-139777242 chr9:139776654-139776664 chr9:139777231-139777243 chr9:139776178-139776192 chr9:139777233-139777242 chr9:139777231-139777243 chr9:139777232-139777241 chr9:139777233-139777242 chr9:139777232-139777242 chr9:139776654-139776664
44	TCF12	chr9:139775785-139777579	A549	lung:	n/a	chr9:139776389-139776399
45	CHD2	chr9:139776126-139776426	GM12878	blood:	n/a	n/a
46	ZEB1	chr9:139776137-139776643	GM12878	blood:	n/a	n/a
47	POLR2A	chr9:139776158-139777372	GM12878	blood:	n/a	n/a
48	MAX	chr9:139776018-139777504	HepG2	liver:	n/a	chr9:139777125-139777135
49	MAZ	chr9:139776097-139776638	GM12878	blood:	n/a	n/a
50	POLR2A	chr9:139776016-139777385	GM12891	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:139751861..139761111-chr9:139774593..139782335,19	K562	blood:
2	chr9:139614007..139616521-chr9:139774313..139776495,2	MCF-7	breast:
3	chr9:139716183..139718077-chr9:139774545..139777483,2	MCF-7	breast:
4	chr9:139775744..139785357-chr9:139834831..139843301,18	MCF-7	breast:
5	chr9:139774666..139777552-chr9:139783564..139786381,2	K562	blood:
6	chr9:139775051..139777712-chr9:139889638..139891649,3	MCF-7	breast:
7	chr9:139739931..139767051-chr9:139773561..139787082,72	MCF-7	breast:
8	chr9:139740288..139765167-chr9:139774067..139789146,84	MCF-7	breast:
9	chr9:139698302..139700386-chr9:139775133..139777095,2	MCF-7	breast:
10	chr9:139775623..139777641-chr9:139838183..139840803,2	MCF-7	breast:

Variant related genes	Relation type
MIR4479	TF binding region
TRAF2	TF binding region
ENSG00000213213	Chromatin interaction
ENSG00000054148	Chromatin interaction
ENSG00000107223	Chromatin interaction
ENSG00000177943	Chromatin interaction
ENSG00000176919	Chromatin interaction
ENSG00000127191	Chromatin interaction
ENSG00000165716	Chromatin interaction
ENSG00000169583	Chromatin interaction
ENSG00000196642	Chromatin interaction
ENSG00000159069	Chromatin interaction

Extended variants
information (count: 165 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:108)

rs_ID	r²[population]
rs10116850	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10119096	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10123375	0.95[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10735659	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10747036	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10747037	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10747038	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10747039	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10747040	0.81[ASN][1000 genomes]
rs10781517	0.95[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10781519	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10781520	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10781521	0.81[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10781524	1.00[JPT][hapmap]
rs10870133	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10870140	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10870141	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11145913	0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11145918	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12555238	0.82[JPT][hapmap]
rs13301872	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[AFR][1000 genomes];0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17250448	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs1800631	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs1806500	0.96[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2077581	0.90[CHB][hapmap];1.00[JPT][hapmap]
rs2236544	1.00[CEU][hapmap];0.90[CHB][hapmap];0.85[JPT][hapmap];0.99[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2275156	0.81[AMR][1000 genomes]
rs2386139	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2386140	0.82[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2784032	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784033	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784074	1.00[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784075	1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap];0.90[ASN][1000 genomes]
rs2784076	0.90[ASN][1000 genomes]
rs2784080	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784081	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784084	0.84[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2784085	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784086	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784087	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784088	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784095	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2784096	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811757	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811758	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811759	0.82[AMR][1000 genomes]
rs2811760	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811761	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811762	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811763	0.85[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs2811764	0.83[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs3739942	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs3750511	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs3750512	1.00[JPT][hapmap]
rs4448378	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4567138	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4636298	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4880071	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4880074	0.85[ASN][1000 genomes]
rs4880075	0.85[ASN][1000 genomes]
rs4880076	0.90[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4880147	0.86[AFR][1000 genomes];0.91[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4880148	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4880149	0.90[ASN][1000 genomes]
rs4880150	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4880151	0.88[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs4880152	0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4880153	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4880154	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4880157	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap];0.86[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4880158	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4880159	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4880160	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs4880161	1.00[CHB][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4880162	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4880163	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4880164	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4880165	0.85[ASN][1000 genomes]
rs4880166	0.96[CEU][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs4880168	0.95[CEU][hapmap];1.00[JPT][hapmap];0.81[ASN][1000 genomes]
rs6560650	0.82[EUR][1000 genomes]
rs7023607	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7025238	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7027246	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7028413	0.81[ASN][1000 genomes]
rs7028806	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7028946	1.00[JPT][hapmap]
rs7030079	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7032070	0.90[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7034762	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7037205	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7039663	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7047374	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[YRI][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7048209	0.84[ASN][1000 genomes]
rs7048334	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7048473	1.00[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7048838	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7048940	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7388748	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7854924	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7868124	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7868660	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7868671	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7869864	0.83[CEU][hapmap];0.90[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7872595	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs872463	1.00[CEU][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs908831	1.00[JPT][hapmap]
rs945385	1.00[CEU][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:57 , 50 per page) page: 1 2

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430118	chr9:139101947-139795504	Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	299 gene(s)	inside rSNPs	diseases
2	nsv540342	chr9:139218422-139973312	Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	317 gene(s)	inside rSNPs	diseases
3	esv2758204	chr9:139252829-139826485	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	270 gene(s)	inside rSNPs	diseases
4	esv2759720	chr9:139252829-139826485	Weak transcription Enhancers Genic enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	270 gene(s)	inside rSNPs	diseases
5	nsv469918	chr9:139254317-140068342	Enhancers Active TSS Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	341 gene(s)	inside rSNPs	diseases
6	nsv540346	chr9:139360142-140164011	Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	471 gene(s)	inside rSNPs	diseases
7	nsv1039149	chr9:139376829-139991102	Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	303 gene(s)	inside rSNPs	diseases
8	esv1803979	chr9:139395473-139979276	Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	267 gene(s)	inside rSNPs	diseases
9	esv1831778	chr9:139395473-139979276	Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	267 gene(s)	inside rSNPs	diseases
10	esv1821575	chr9:139395473-140068342	Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Genic enhancers Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	293 gene(s)	inside rSNPs	diseases
11	esv2422220	chr9:139478587-140244550	Strong transcription Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Enhancers Weak transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	454 gene(s)	inside rSNPs	diseases
12	nsv894409	chr9:139483954-139860264	Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	209 gene(s)	inside rSNPs	diseases
13	nsv894422	chr9:139487092-139776400	Transcr. at gene 5' and 3' Enhancers Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
14	nsv894432	chr9:139522101-139869914	Flanking Bivalent TSS/Enh Strong transcription Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	205 gene(s)	inside rSNPs	diseases
15	nsv894440	chr9:139544437-139841512	Active TSS Weak transcription Genic enhancers Strong transcription Bivalent Enhancer Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	194 gene(s)	inside rSNPs	diseases
16	nsv894441	chr9:139544437-139860264	Flanking Active TSS Weak transcription Bivalent Enhancer Strong transcription Bivalent/Poised TSS Enhancers Genic enhancers Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	201 gene(s)	inside rSNPs	diseases
17	nsv894442	chr9:139544437-140462099	Flanking Bivalent TSS/Enh Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	469 gene(s)	inside rSNPs	diseases
18	nsv894450	chr9:139598108-139776400	Active TSS Strong transcription Genic enhancers Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	130 gene(s)	inside rSNPs	diseases
19	nsv894451	chr9:139598108-139995065	Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	200 gene(s)	inside rSNPs	diseases
20	nsv894452	chr9:139598108-140523429	Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Bivalent Enhancer Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	450 gene(s)	inside rSNPs	diseases
21	nsv894454	chr9:139607966-139904037	Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent/Poised TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	172 gene(s)	inside rSNPs	diseases
22	nsv894455	chr9:139607966-140411547	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	417 gene(s)	inside rSNPs	diseases
23	nsv818738	chr9:139634495-139904037	Strong transcription Flanking Active TSS Weak transcription Enhancers Bivalent Enhancer Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	126 gene(s)	inside rSNPs	diseases
24	nsv894457	chr9:139650448-139776400	Genic enhancers Active TSS Enhancers Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	79 gene(s)	inside rSNPs	diseases
25	nsv894458	chr9:139683224-139776400	Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	77 gene(s)	inside rSNPs	diseases
26	nsv894459	chr9:139683224-139787453	Genic enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	80 gene(s)	inside rSNPs	diseases
27	nsv894460	chr9:139683224-139810595	Flanking Bivalent TSS/Enh Weak transcription Active TSS Flanking Active TSS Genic enhancers Enhancers Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	83 gene(s)	inside rSNPs	diseases
28	nsv894461	chr9:139683224-139860264	Strong transcription Active TSS Flanking Active TSS Enhancers Bivalent Enhancer Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	97 gene(s)	inside rSNPs	diseases
29	nsv894462	chr9:139683224-140274164	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	353 gene(s)	inside rSNPs	diseases
30	nsv894463	chr9:139683224-140411547	Flanking Active TSS Bivalent/Poised TSS Weak transcription Enhancers Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	376 gene(s)	inside rSNPs	diseases
31	nsv894464	chr9:139690144-139776400	Strong transcription Weak transcription Bivalent/Poised TSS ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	72 gene(s)	inside rSNPs	diseases
32	nsv894465	chr9:139690144-139795504	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	76 gene(s)	inside rSNPs	diseases
33	esv1846327	chr9:139690144-139841512	Active TSS Genic enhancers Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	86 gene(s)	inside rSNPs	diseases
34	nsv524322	chr9:139690144-140376668	Genic enhancers Bivalent Enhancer Weak transcription Bivalent/Poised TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	371 gene(s)	inside rSNPs	diseases
35	nsv894466	chr9:139693992-139784683	Enhancers Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer Strong transcription Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	74 gene(s)	inside rSNPs	diseases
36	nsv894467	chr9:139693992-139810595	Active TSS Enhancers Transcr. at gene 5' and 3' Weak transcription Genic enhancers Flanking Active TSS Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	77 gene(s)	inside rSNPs	diseases
37	nsv894468	chr9:139693992-139860264	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	92 gene(s)	inside rSNPs	diseases
38	nsv894469	chr9:139693992-140118448	Bivalent Enhancer Genic enhancers Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	200 gene(s)	inside rSNPs	diseases
39	nsv894470	chr9:139693992-140339091	Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	358 gene(s)	inside rSNPs	diseases
40	nsv894471	chr9:139694521-139776400	Weak transcription Genic enhancers Enhancers Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	71 gene(s)	inside rSNPs	diseases
41	nsv894472	chr9:139694521-139787453	Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Enhancers Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	74 gene(s)	inside rSNPs	diseases
42	nsv894473	chr9:139694521-139810595	Bivalent/Poised TSS Active TSS Strong transcription Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	77 gene(s)	inside rSNPs	diseases
43	nsv894474	chr9:139694521-140432318	Genic enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Flanking Active TSS Strong transcription Enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	374 gene(s)	inside rSNPs	diseases
44	nsv894475	chr9:139694569-139786465	Active TSS Genic enhancers Weak transcription Bivalent Enhancer Strong transcription Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA	74 gene(s)	inside rSNPs	diseases
45	nsv540352	chr9:139695108-140351178	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Flanking Active TSS Weak transcription Bivalent/Poised TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	358 gene(s)	inside rSNPs	diseases
46	nsv894479	chr9:139697456-139784683	Enhancers Strong transcription Active TSS Weak transcription Flanking Bivalent TSS/Enh Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	73 gene(s)	inside rSNPs	diseases
47	nsv894480	chr9:139700605-139795504	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Active TSS Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	74 gene(s)	inside rSNPs	diseases
48	nsv894481	chr9:139709976-139810595	Flanking Active TSS Enhancers Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	62 gene(s)	inside rSNPs	diseases
49	nsv894482	chr9:139709976-139860264	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	78 gene(s)	inside rSNPs	diseases
50	nsv894483	chr9:139709976-139963091	Transcr. at gene 5' and 3' Enhancers Active TSS Strong transcription Genic enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	119 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs3739943	EDF1	Cis_1M	lymphoblastoid	RTeQTL
rs3739943	RP11-229P13.19	cis	Whole Blood	GTEx
rs3739943	PHPT1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:75 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:139774000-139776400	Weak transcription	Right Atrium	heart
2	chr9:139774800-139776400	Enhancers	Fetal Intestine Small	intestine
3	chr9:139775000-139776200	Enhancers	Primary T cells fromperipheralblood	blood
4	chr9:139775000-139776400	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
5	chr9:139775000-139776400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
6	chr9:139775000-139776400	Enhancers	Fetal Intestine Large	intestine
7	chr9:139775000-139778000	Enhancers	Spleen	Spleen
8	chr9:139775200-139777400	Enhancers	Sigmoid Colon	Sigmoid Colon
9	chr9:139775200-139777800	Enhancers	Pancreas	Pancrea
10	chr9:139775200-139779800	Enhancers	Placenta	Placenta
11	chr9:139775600-139776200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr9:139775800-139776200	Enhancers	Primary hematopoietic stem cells	blood
13	chr9:139775800-139776200	Enhancers	Primary T helper naive cells from peripheral blood	blood
14	chr9:139775800-139776200	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr9:139775800-139776200	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr9:139775800-139776200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
17	chr9:139775800-139776400	Enhancers	Primary B cells from peripheral blood	blood
18	chr9:139775800-139776400	Bivalent Enhancer	Adipose Nuclei	Adipose
19	chr9:139775800-139776600	Enhancers	HUES6 Cell Line	embryonic stem cell
20	chr9:139775800-139776800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr9:139775800-139776800	Enhancers	Liver	Liver
22	chr9:139775800-139777000	Enhancers	ES-I3 Cell Line	embryonic stem cell
23	chr9:139775800-139777000	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:139775800-139777200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
25	chr9:139775800-139778000	Enhancers	Fetal Heart	heart
26	chr9:139775800-139778000	Enhancers	Fetal Thymus	thymus
27	chr9:139775800-139778000	Flanking Active TSS	HepG2	liver
28	chr9:139776000-139776200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
29	chr9:139776000-139776200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
30	chr9:139776000-139776200	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
31	chr9:139776000-139776200	Enhancers	Primary T regulatory cells fromperipheralblood	blood
32	chr9:139776000-139776200	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
33	chr9:139776000-139776200	Enhancers	Primary T killer memory cells from peripheral blood	blood
34	chr9:139776000-139776200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
35	chr9:139776000-139776200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
36	chr9:139776000-139776200	Enhancers	Primary mononuclear cells fromperipheralblood	Blood
37	chr9:139776000-139776200	Enhancers	Rectal Mucosa Donor 29	rectum
38	chr9:139776000-139776200	Enhancers	Rectal Mucosa Donor 31	rectum
39	chr9:139776000-139776200	Enhancers	Monocytes-CD14+_RO01746	blood
40	chr9:139776000-139776200	Enhancers	Osteobl	bone
41	chr9:139776000-139776400	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
42	chr9:139776000-139776400	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
43	chr9:139776000-139776400	Enhancers	Primary monocytes fromperipheralblood	blood
44	chr9:139776000-139776400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
45	chr9:139776000-139776400	Enhancers	Colon Smooth Muscle	Colon
46	chr9:139776000-139776400	Enhancers	Duodenum Smooth Muscle	Duodenum
47	chr9:139776000-139776400	Bivalent Enhancer	Skeletal Muscle Male	skeletal muscle
48	chr9:139776000-139776400	Enhancers	Skeletal Muscle Female	skeletal muscle
49	chr9:139776000-139776400	Enhancers	Small Intestine	intestine
50	chr9:139776000-139776400	Enhancers	Stomach Mucosa	stomach

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