Variant report

Variant	rs945386
Chromosome Location	chr9:139693596-139693597
allele	C/T
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	MAZ	chr9:139693533-139693924	HepG2	liver:	n/a	n/a
2	POLR2A	chr9:139693189-139695805	Hela-S3	cervix:	n/a	n/a
3	POLR2A	chr9:139692561-139696180	HepG2	liver:	n/a	n/a
4	ZBTB7A	chr9:139693501-139693952	HepG2	liver:	n/a	n/a
5	MBD4	chr9:139693067-139694144	HepG2	liver:	n/a	n/a
6	NFIC	chr9:139693235-139693894	HepG2	liver:	n/a	n/a
7	ELF1	chr9:139693438-139694076	MCF-7	breast:	n/a	n/a
8	POLR2A	chr9:139693184-139694661	GM12878	blood:	n/a	n/a
9	POLR2A	chr9:139692995-139694671	ECC-1	luminal epithelium:	n/a	n/a
10	POLR2A	chr9:139692967-139697247	MCF10A-Er-Src	breast:	n/a	n/a
11	POLR2A	chr9:139693049-139696183	MCF10A-Er-Src	breast:	n/a	n/a
12	POLR2A	chr9:139693578-139693709	A549	lung:	n/a	n/a
13	POLR2A	chr9:139693097-139693933	Hela-S3	cervix:	n/a	n/a
14	SP1	chr9:139693399-139694047	HepG2	liver:	n/a	chr9:139693408-139693422
15	MYC	chr9:139693533-139693862	HepG2	liver:	n/a	n/a
16	CEBPD	chr9:139693239-139695101	HepG2	liver:	n/a	n/a
17	POLR2A	chr9:139693250-139694533	PBDE	blood:	n/a	n/a
18	TCF12	chr9:139693090-139694472	A549	lung:	n/a	chr9:139693339-139693346 chr9:139693495-139693503
19	POLR2A	chr9:139682141-139704512	HepG2	liver:	n/a	n/a
20	FOXA1	chr9:139693400-139693898	HepG2	liver:	n/a	chr9:139693722-139693737
21	FOXA2	chr9:139693507-139693895	HepG2	liver:	n/a	n/a
22	FOXA2	chr9:139693468-139694037	A549	lung:	n/a	n/a
23	EP300	chr9:139693393-139693977	HepG2	liver:	n/a	n/a
24	POLR2A	chr9:139693443-139694677	HL-60	blood:	n/a	n/a
25	FOXA1	chr9:139693427-139694009	HepG2	liver:	n/a	chr9:139693722-139693737
26	FOXA1	chr9:139693068-139694026	HepG2	liver:	n/a	chr9:139693722-139693737
27	YY1	chr9:139693243-139694097	HepG2	liver:	n/a	n/a
28	POLR2A	chr9:139693485-139693921	A549	lung:	n/a	n/a
29	POLR2A	chr9:139693334-139693891	HepG2	liver:	n/a	n/a
30	NFIC	chr9:139693425-139693908	HepG2	liver:	n/a	n/a
31	POLR2A	chr9:139693461-139694012	A549	lung:	n/a	n/a
32	POLR2A	chr9:139692955-139694661	HepG2	liver:	n/a	n/a
33	TAF1	chr9:139693112-139695173	HepG2	liver:	n/a	n/a
34	MAX	chr9:139693017-139695932	HepG2	liver:	n/a	chr9:139694640-139694650 chr9:139693471-139693480
35	HEY1	chr9:139692888-139695999	HepG2	liver:	n/a	chr9:139694684-139694699 chr9:139695023-139695038 chr9:139694635-139694650
36	POLR2A	chr9:139693370-139693773	MCF-7	breast:	n/a	n/a
37	FOXA2	chr9:139693570-139693914	A549	lung:	n/a	n/a
38	MYBL2	chr9:139692890-139694707	HepG2	liver:	n/a	n/a
39	TCF12	chr9:139693405-139693983	HepG2	liver:	n/a	chr9:139693495-139693503
40	POLR2A	chr9:139693067-139695102	HepG2	liver:	n/a	n/a
41	POLR2A	chr9:139692969-139695128	HepG2	liver:	n/a	n/a
42	FOXA1	chr9:139693505-139693873	T-47D	breast:	n/a	chr9:139693722-139693737
43	MXI1	chr9:139693417-139693816	HepG2	liver:	n/a	chr9:139693540-139693549
44	HNF4A	chr9:139693359-139693895	HepG2	liver:	n/a	n/a
45	POLR2A	chr9:139693290-139695928	MCF-7	breast:	n/a	n/a
46	POLR2A	chr9:139693151-139696115	MCF-7	breast:	n/a	n/a
47	JUND	chr9:139693460-139694049	HepG2	liver:	n/a	n/a
48	FOSL2	chr9:139693234-139694021	HepG2	liver:	n/a	n/a
49	MAX	chr9:139693424-139695952	MCF-7	breast:	n/a	chr9:139694640-139694650 chr9:139693471-139693480
50	HDAC2	chr9:139693467-139695096	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr9:139257747..139259328-chr9:139692821..139695681,2	MCF-7	breast:
2	chr9:139691906..139694692-chr9:139746602..139748175,2	K562	blood:
3	chr9:139693022..139696090-chr9:139793195..139796394,4	MCF-7	breast:
4	chr9:139693062..139698077-chr9:139715739..139719346,4	K562	blood:
5	chr9:139692582..139697157-chr9:139741560..139746001,12	MCF-7	breast:
6	chr9:139692835..139695036-chr9:139735254..139738901,4	MCF-7	breast:
7	chr9:139692613..139695427-chr9:139886563..139888609,3	MCF-7	breast:
8	chr9:139691318..139694320-chr9:139739366..139743319,3	K562	blood:
9	chr9:139693327..139695120-chr9:139920387..139922452,2	K562	blood:
10	chr9:139692738..139694720-chr9:139709911..139711843,2	K562	blood:
11	chr9:139691633..139694818-chr9:139759227..139762534,3	K562	blood:
12	chr9:139682195..139706361-chr9:139728316..139752024,110	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272679	TF binding region
CCDC183	TF binding region
ENSG00000273066	TF binding region
ENSG00000213221	Chromatin interaction
ENSG00000054148	Chromatin interaction
ENSG00000148362	Chromatin interaction
ENSG00000180539	Chromatin interaction
ENSG00000213212	Chromatin interaction
ENSG00000196642	Chromatin interaction
ENSG00000177943	Chromatin interaction
ENSG00000107223	Chromatin interaction
ENSG00000232434	Chromatin interaction
ENSG00000127191	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 12 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs11145887	0.86[MEX][hapmap]
rs2811787	0.93[JPT][hapmap]
rs2811789	0.94[CHB][hapmap];0.93[JPT][hapmap];0.96[ASN][1000 genomes]
rs3739950	0.81[MEX][hapmap]
rs4442241	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs4546744	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.95[YRI][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62581419	0.90[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs6560648	1.00[ASW][hapmap];0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7853798	0.84[EUR][1000 genomes]
rs7859194	1.00[ASW][hapmap];1.00[CEU][hapmap];0.94[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.96[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7871359	1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.86[EUR][1000 genomes]
rs884519	0.86[JPT][hapmap]
rs945387	0.94[CHB][hapmap];0.86[CHD][hapmap];0.93[JPT][hapmap];0.93[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:47 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1849811	chr9:138939662-139755001	Bivalent Enhancer Strong transcription Weak transcription Genic enhancers Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	323 gene(s)	inside rSNPs	diseases
2	esv1822553	chr9:138967205-139755539	Genic enhancers Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription 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	323 gene(s)	inside rSNPs	diseases
3	esv1851120	chr9:139101947-139711758	Bivalent Enhancer Weak transcription Active TSS Enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	275 gene(s)	inside rSNPs	diseases
4	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
5	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
6	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
7	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
8	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
9	esv1799492	chr9:139341612-139711758	Transcr. at gene 5' and 3' Enhancers Flanking Bivalent TSS/Enh Strong transcription Weak transcription Bivalent Enhancer Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	216 gene(s)	inside rSNPs	diseases
10	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
11	nsv894386	chr9:139376426-139693992	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	208 gene(s)	inside rSNPs	diseases
12	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
13	esv1829857	chr9:139385438-139760041	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Strong transcription Bivalent Enhancer 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 miRNA target site	212 gene(s)	inside rSNPs	diseases
14	esv1819204	chr9:139388365-139758238	Strong transcription Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Active TSS Genic enhancers Bivalent Enhancer 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	212 gene(s)	inside rSNPs	diseases
15	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
16	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
17	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
18	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
19	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
20	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
21	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
22	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
23	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
24	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
25	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
26	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
27	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
28	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
29	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
30	nsv1051605	chr9:139620105-139728697	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA	108 gene(s)	inside rSNPs	diseases
31	nsv540350	chr9:139620105-139728697	Bivalent Enhancer Genic enhancers Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription 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	108 gene(s)	inside rSNPs	diseases
32	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
33	nsv466681	chr9:139647074-139693992	Genic enhancers Active TSS Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
34	nsv615982	chr9:139647074-139693992	Enhancers Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	46 gene(s)	inside rSNPs	diseases
35	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
36	nsv540351	chr9:139664948-139703627	Strong transcription Active TSS Enhancers Flanking Active TSS Weak transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	53 gene(s)	inside rSNPs	diseases
37	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
38	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
39	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
40	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
41	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
42	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
43	esv29973	chr9:139690144-139754110	Bivalent/Poised TSS Enhancers Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Weak transcription Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	70 gene(s)	inside rSNPs	diseases
44	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
45	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
46	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
47	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

mRNA abundance (count:12)

SNP	Gene	Cis/trans	Tissue	Source
rs945386	GBGT1	cis	parietal	SCAN
rs945386	BRD3	cis	cerebellum	SCAN
rs945386	LCN8	cis	lymphoblastoid	seeQTL
rs945386	PHPT1	Cis_1M	lymphoblastoid	RTeQTL
rs945386	TMEM141	cis	cerebellum	SCAN
rs945386	NDOR1	cis	parietal	SCAN
rs945386	PAEP	cis	cerebellum	SCAN
rs945386	C9orf163	cis	parietal	SCAN
rs945386	FAM166A	cis	cerebellum	SCAN
rs945386	TMEM141	cis	parietal	SCAN
rs945386	FLJ40292	cis	cerebellum	SCAN
rs945386	LCN8	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:139686800-139693800	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr9:139687200-139693600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr9:139687200-139694400	Weak transcription	Brain Substantia Nigra	brain
4	chr9:139688000-139693600	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr9:139689400-139693800	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
6	chr9:139690000-139693800	Enhancers	Pancreas	Pancrea
7	chr9:139690400-139694400	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr9:139690800-139694000	Enhancers	Fetal Thymus	thymus
9	chr9:139691000-139693600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr9:139691000-139694000	Weak transcription	Left Ventricle	heart
11	chr9:139691800-139693600	Weak transcription	Primary T cells from cord blood	blood
12	chr9:139691800-139693800	Weak transcription	Right Ventricle	heart
13	chr9:139691800-139694000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr9:139692200-139694000	Weak transcription	K562	blood
15	chr9:139692800-139693600	Flanking Active TSS	HepG2	liver
16	chr9:139692800-139693800	Bivalent Enhancer	Stomach Mucosa	stomach
17	chr9:139693000-139693600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
18	chr9:139693000-139693600	Flanking Active TSS	Fetal Intestine Small	intestine
19	chr9:139693000-139693800	Bivalent Enhancer	Primary T helper cells fromperipheralblood	blood
20	chr9:139693000-139693800	Enhancers	Thymus	Thymus
21	chr9:139693000-139695600	Bivalent/Poised TSS	Rectal Smooth Muscle	rectum
22	chr9:139693200-139693600	Bivalent Enhancer	Brain Dorsolateral Prefrontal Cortex	brain
23	chr9:139693200-139693800	Bivalent Enhancer	Primary B cells from peripheral blood	blood
24	chr9:139693200-139693800	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr9:139693200-139693800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Female	--
26	chr9:139693200-139693800	Bivalent Enhancer	Primary hematopoietic stem cells G-CSF-mobilized Male	--
27	chr9:139693200-139693800	Bivalent/Poised TSS	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr9:139693200-139693800	Enhancers	Liver	Liver
29	chr9:139693200-139693800	Bivalent Enhancer	Duodenum Mucosa	Duodenum
30	chr9:139693200-139693800	Enhancers	Sigmoid Colon	Sigmoid Colon
31	chr9:139693200-139694000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr9:139693200-139694000	Bivalent Enhancer	Breast Myoepithelial Primary Cells	Breast
33	chr9:139693200-139694000	Bivalent Enhancer	Primary Natural Killer cells fromperipheralblood	blood
34	chr9:139693200-139694000	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
35	chr9:139693200-139694000	Bivalent Enhancer	Placenta	Placenta
36	chr9:139693200-139694000	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 31	rectum
37	chr9:139693200-139694400	Enhancers	Esophagus	oesophagus
38	chr9:139693200-139694400	Enhancers	Lung	lung
39	chr9:139693200-139694600	Flanking Bivalent TSS/Enh	Colonic Mucosa	Colon
40	chr9:139693200-139694600	Flanking Bivalent TSS/Enh	Fetal Intestine Large	intestine
41	chr9:139693200-139694800	Bivalent Enhancer	Fetal Muscle Leg	muscle
42	chr9:139693200-139695800	Enhancers	Placenta Amnion	Placenta Amnion
43	chr9:139693400-139693600	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
44	chr9:139693400-139693600	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr9:139693400-139693600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin02	Skin
46	chr9:139693400-139693600	Bivalent Enhancer	Foreskin Keratinocyte Primary Cells skin03	Skin
47	chr9:139693400-139693600	Flanking Bivalent TSS/Enh	Rectal Mucosa Donor 29	rectum
48	chr9:139693400-139693600	Enhancers	HMEC	breast
49	chr9:139693400-139693800	Genic enhancers	iPS DF 19.11 Cell Line	embryonic stem cell
50	chr9:139693400-139693800	Bivalent Enhancer	ES-UCSF4 Cell Line	embryonic stem cell

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