Variant report

Variant	rs2377143
Chromosome Location	chr10:49487136-49487137
allele	A/C
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	RELA	chr10:49487091-49487761	GM15510	blood:	n/a	n/a
2	MTA3	chr10:49486972-49487632	GM12878	blood:	n/a	n/a
3	IRF4	chr10:49486971-49487900	GM12878	blood:	n/a	n/a
4	STAT3	chr10:49487088-49487736	GM12878	blood:	n/a	n/a
5	POLR2A	chr10:49487130-49487485	GM12878	blood:	n/a	n/a
6	RELA	chr10:49487029-49487777	GM19193	blood:	n/a	n/a
7	POLR2A	chr10:49487038-49488651	GM12878	blood:	n/a	n/a
8	BCLAF1	chr10:49487006-49487512	GM12878	blood:	n/a	n/a
9	PAX5	chr10:49487006-49487885	GM12878	blood:	n/a	chr10:49487273-49487292
10	PML	chr10:49486901-49487830	GM12878	blood:	n/a	n/a
11	POU2F2	chr10:49487075-49487525	GM12878	blood:	n/a	n/a
12	TAF1	chr10:49487107-49487511	GM12878	blood:	n/a	n/a
13	YY1	chr10:49487017-49487646	GM12892	blood:	n/a	n/a
14	POLR2A	chr10:49486983-49489175	GM12878	blood:	n/a	n/a
15	SPI1	chr10:49487063-49487685	GM12891	blood:	n/a	n/a
16	ATF2	chr10:49486941-49487901	GM12878	blood:	n/a	n/a
17	POU2F2	chr10:49487058-49487450	GM12891	blood:	n/a	n/a
18	REST	chr10:49487118-49487419	GM12878	blood:	n/a	n/a
19	RELA	chr10:49487106-49487768	GM18951	blood:	n/a	n/a
20	POLR2A	chr10:49487016-49487877	GM12892	blood:	n/a	n/a
21	POLR2A	chr10:49487058-49487833	GM12891	blood:	n/a	n/a
22	CEBPB	chr10:49487092-49487478	GM12878	blood:	n/a	n/a
23	POLR2A	chr10:49486921-49487946	GM12892	blood:	n/a	n/a
24	STAT5A	chr10:49486989-49487698	GM12878	blood:	n/a	n/a
25	TAF1	chr10:49487121-49487438	GM12891	blood:	n/a	n/a
26	SPI1	chr10:49487118-49487500	GM12878	blood:	n/a	n/a
27	POU2F2	chr10:49486969-49487839	GM12878	blood:	n/a	n/a
28	POLR2A	chr10:49486982-49490326	GM12878	blood:	n/a	n/a
29	SP1	chr10:49486997-49487856	GM12878	blood:	n/a	n/a
30	YY1	chr10:49487017-49487673	GM12892	blood:	n/a	n/a
31	SPI1	chr10:49486878-49488018	GM12878	blood:	n/a	n/a
32	FOXM1	chr10:49486887-49487800	GM12878	blood:	n/a	n/a
33	RELA	chr10:49487040-49487799	GM19099	blood:	n/a	n/a
34	FOXM1	chr10:49486925-49487943	GM12878	blood:	n/a	n/a
35	PAX5	chr10:49487058-49487503	GM12878	blood:	n/a	chr10:49487273-49487292
36	TCF3	chr10:49486998-49487501	GM12878	blood:	n/a	n/a
37	CHD2	chr10:49487060-49487644	GM12878	blood:	n/a	n/a
38	EP300	chr10:49487045-49487521	GM12878	blood:	n/a	n/a
39	POLR2A	chr10:49487034-49487808	GM12891	blood:	n/a	n/a
40	YY1	chr10:49487085-49487669	GM12891	blood:	n/a	n/a
41	YY1	chr10:49487066-49487745	GM12878	blood:	n/a	n/a
42	MEF2A	chr10:49486933-49487472	GM12878	blood:	n/a	chr10:49486993-49487014 chr10:49486995-49487010 chr10:49486997-49487008 chr10:49486993-49487014 chr10:49486994-49487010 chr10:49486998-49487007
43	SMC3	chr10:49487047-49487468	GM12878	blood:	n/a	n/a
44	ATF2	chr10:49486865-49488015	GM12878	blood:	n/a	n/a
45	STAT5A	chr10:49486909-49487513	GM12878	blood:	n/a	n/a
46	CHD1	chr10:49487033-49487459	GM12878	blood:	n/a	n/a
47	POU2F2	chr10:49487080-49487495	GM12891	blood:	n/a	n/a
48	YY1	chr10:49486996-49487807	GM12878	blood:	n/a	n/a
49	MTA3	chr10:49486897-49487853	GM12878	blood:	n/a	n/a
50	BHLHE40	chr10:49486921-49487764	GM12878	blood:	n/a	n/a

Variant related genes	Relation type
FRMPD2	TF binding region

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10508903	0.80[CHB][hapmap]
rs10745265	0.88[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs10776590	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10776591	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10776592	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs10776594	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs10776595	0.80[CHB][hapmap]
rs10857554	1.00[CEU][hapmap];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10857564	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs10857565	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs11101280	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11101281	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11101282	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs11101285	0.94[JPT][hapmap]
rs11101318	0.80[CHB][hapmap]
rs1112268	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs11597435	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs11598320	0.80[CHB][hapmap];0.87[JPT][hapmap]
rs12358297	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs17780725	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs1881735	0.94[JPT][hapmap]
rs1881737	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs1881740	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs1881741	0.87[CHB][hapmap];0.92[JPT][hapmap]
rs1919706	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs1919707	0.93[CHB][hapmap];0.93[JPT][hapmap]
rs1919709	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs1919710	1.00[ASN][1000 genomes]
rs1919712	0.80[CHB][hapmap]
rs1997365	0.94[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs2377141	0.81[ASN][1000 genomes]
rs2377142	0.93[ASN][1000 genomes]
rs2377349	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs2590386	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs2590391	0.88[CHB][hapmap];0.94[JPT][hapmap]
rs2698758	0.83[CHB][hapmap];0.94[JPT][hapmap]
rs2698767	0.84[CHB][hapmap]
rs2698768	0.82[CHB][hapmap];0.94[JPT][hapmap]
rs2889595	0.89[CHB][hapmap];0.94[JPT][hapmap]
rs4529852	0.93[ASN][1000 genomes]
rs4838404	0.82[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];0.91[ASN][1000 genomes]
rs4838590	0.80[CHB][hapmap]
rs6537559	0.94[CHB][hapmap];0.94[JPT][hapmap];0.82[ASN][1000 genomes]
rs7068398	0.88[JPT][hapmap]
rs7072515	0.80[CHB][hapmap]
rs7095392	0.92[ASN][1000 genomes]
rs7097975	1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[ASN][1000 genomes]
rs7898026	0.94[CHB][hapmap];0.88[JPT][hapmap];0.80[ASN][1000 genomes]
rs9284	0.80[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895366	chr10:49299274-49576454	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv895367	chr10:49333754-49491047	Flanking Active TSS Enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
3	nsv895368	chr10:49381635-49551560	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv467190	chr10:49402084-49576878	Flanking Active TSS Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
5	nsv550811	chr10:49402084-49576878	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
6	nsv550812	chr10:49484698-49524715	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:49466800-49492400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:49486800-49487200	Flanking Active TSS	GM12878-XiMat	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links