Variant report

Variant	rs3754426
Chromosome Location	chr1:172499029-172499030
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	MAFK	chr1:172499008-172499516	K562	blood:	n/a	chr1:172499120-172499131 chr1:172499119-172499130 chr1:172499120-172499131 chr1:172499119-172499130
2	SIN3AK20	chr1:172498930-172499762	MCF-7	breast:	n/a	n/a
3	TCF7L2	chr1:172499014-172499550	MCF-7	breast:	n/a	n/a
4	TEAD4	chr1:172499004-172499597	MCF-7	breast:	n/a	n/a
5	FOXM1	chr1:172499020-172499650	MCF-7	breast:	n/a	n/a
6	TEAD4	chr1:172499005-172499639	K562	blood:	n/a	n/a
7	MYC	chr1:172499025-172499744	K562	blood:	n/a	n/a
8	IRF1	chr1:172498819-172499744	K562	blood:	n/a	n/a
9	FOXM1	chr1:172498894-172499717	MCF-7	breast:	n/a	n/a
10	NR2F2	chr1:172498965-172499747	MCF-7	breast:	n/a	n/a
11	ELF1	chr1:172498957-172499827	MCF-7	breast:	n/a	n/a
12	ARID3A	chr1:172498960-172499589	K562	blood:	n/a	n/a
13	GATA3	chr1:172498955-172499704	SK-N-SH	brain:	n/a	n/a
14	IRF1	chr1:172499022-172499719	K562	blood:	n/a	n/a
15	TCF12	chr1:172498903-172499740	MCF-7	breast:	n/a	chr1:172499324-172499333
16	EP300	chr1:172499005-172499761	MCF-7	breast:	n/a	chr1:172499323-172499333
17	ZNF217	chr1:172498947-172499635	MCF-7	breast:	n/a	n/a
18	JUND	chr1:172498627-172499580	K562	blood:	n/a	n/a
19	GATA3	chr1:172498912-172499736	SK-N-SH	brain:	n/a	n/a
20	GATA3	chr1:172498923-172499794	MCF-7	breast:	n/a	n/a
21	NR2F2	chr1:172498976-172499801	MCF-7	breast:	n/a	n/a
22	GATA3	chr1:172498657-172499874	MCF-7	breast:	n/a	n/a
23	HDAC2	chr1:172499028-172499773	MCF-7	breast:	n/a	chr1:172499324-172499333
24	JUND	chr1:172498942-172499632	MCF-7	breast:	n/a	n/a
25	CEBPB	chr1:172498986-172499766	MCF-7	breast:	n/a	n/a
26	EP300	chr1:172499010-172499724	MCF-7	breast:	n/a	chr1:172499323-172499333
27	GATA3	chr1:172499008-172499744	MCF-7	breast:	n/a	n/a
28	SIN3AK20	chr1:172498904-172499756	MCF-7	breast:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr1:172411084..172422561-chr1:172496524..172504623,44	MCF-7	breast:
2	chr1:172486127..172488704-chr1:172497575..172501072,3	MCF-7	breast:
3	chr1:172440495..172444630-chr1:172497465..172500697,4	MCF-7	breast:
4	chr1:172469701..172471621-chr1:172497308..172500120,2	K562	blood:
5	chr1:172398685..172401320-chr1:172498374..172501094,2	MCF-7	breast:
6	chr1:172412087..172424934-chr1:172497120..172505334,59	MCF-7	breast:

Variant related genes	Relation type
SUCO	TF binding region
ENSG00000180999	Chromatin interaction
ENSG00000135845	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:53)

rs_ID	r²[population]
rs10157501	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10752995	0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs10911830	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs10911833	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs10911843	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10911859	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10911862	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10911875	0.95[ASN][1000 genomes]
rs10911920	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10912075	0.90[AMR][1000 genomes]
rs1159378	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11799659	0.84[ASN][1000 genomes]
rs12021702	0.94[AMR][1000 genomes]
rs12025433	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12038654	0.89[AMR][1000 genomes]
rs12041837	0.81[AMR][1000 genomes]
rs12070393	0.93[AMR][1000 genomes]
rs12073872	0.87[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];0.82[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs12093274	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12118647	0.85[ASN][1000 genomes]
rs12120798	0.94[CHB][hapmap];0.82[JPT][hapmap];0.89[YRI][hapmap];0.81[AFR][1000 genomes];0.94[AMR][1000 genomes];0.86[ASN][1000 genomes]
rs12123755	0.89[AMR][1000 genomes]
rs12130435	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12145007	0.87[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2239816	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2239817	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs2285143	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2285664	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs2472549	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs3738736	0.86[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs3830150	0.80[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs56410307	0.81[ASN][1000 genomes]
rs6424954	0.86[ASN][1000 genomes]
rs6424955	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6424956	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6424965	0.92[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6657023	0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6679222	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6688929	0.94[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs6691320	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6691528	0.87[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6694111	0.86[ASN][1000 genomes]
rs6697618	0.86[ASN][1000 genomes]
rs6698031	0.86[ASN][1000 genomes]
rs6699802	0.86[CHB][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs6702420	0.87[CHB][hapmap];0.94[JPT][hapmap];0.86[ASN][1000 genomes]
rs72710417	0.94[AMR][1000 genomes]
rs7514814	0.91[CEU][hapmap];0.94[CHB][hapmap];0.82[JPT][hapmap];0.92[YRI][hapmap];0.89[AMR][1000 genomes]
rs7517856	0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7532580	0.91[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.88[YRI][hapmap];0.89[AMR][1000 genomes]
rs7542003	0.90[AMR][1000 genomes]
rs7553020	0.82[AMR][1000 genomes]
rs9943237	1.00[CEU][hapmap];0.87[CHB][hapmap];1.00[JPT][hapmap];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:172495800-172500400	Weak transcription	Fetal Intestine Small	intestine
2	chr1:172498200-172500600	Enhancers	HepG2	liver
3	chr1:172498200-172501200	Enhancers	Placenta Amnion	Placenta Amnion
4	chr1:172498400-172500600	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr1:172498800-172500400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr1:172499000-172499200	Enhancers	Primary hematopoietic stem cells	blood
7	chr1:172499000-172499200	Enhancers	Primary T killer memory cells from peripheral blood	blood
8	chr1:172499000-172499600	Enhancers	Hela-S3	cervix
9	chr1:172499000-172500400	Enhancers	K562	blood
10	chr1:172499000-172500600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--

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