Variant report

Variant	rs10954602
Chromosome Location	chr7:137774930-137774931
allele	A/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	FOXA2	chr7:137774089-137775082	HepG2	liver:	n/a	chr7:137774162-137774174

No.	Distal block	Cell Line	Cell type
1	chr7:137769402..137771015-chr7:137771922..137774982,3	MCF-7	breast:
2	chr7:137686258..137688306-chr7:137772925..137775024,2	MCF-7	breast:
3	chr7:137746837..137750836-chr7:137772601..137775949,4	MCF-7	breast:
4	chr7:137774765..137777637-chr7:138144590..138146200,2	MCF-7	breast:

Variant related genes	Relation type
RN7SKP223	TF binding region
AKR1D1	TF binding region
ENSG00000122779	Chromatin interaction
ENSG00000182158	Chromatin interaction
ENSG00000122787	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10228704	0.85[YRI][hapmap];0.81[AMR][1000 genomes]
rs10246884	1.00[CEU][hapmap];0.91[CHB][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs1025967	0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10264658	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs10280394	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10280628	0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13243992	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1424379	0.82[JPT][hapmap]
rs1424380	0.82[JPT][hapmap]
rs2035647	0.85[YRI][hapmap]
rs2120846	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2166188	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2859828	1.00[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.94[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs3757393	0.95[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3807332	1.00[CEU][hapmap];0.91[JPT][hapmap];0.80[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4732285	1.00[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6945659	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6954846	0.82[AMR][1000 genomes]
rs6977075	0.90[CEU][hapmap];1.00[YRI][hapmap];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6980334	0.90[CEU][hapmap];0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7784881	1.00[CEU][hapmap];0.87[CHB][hapmap];0.90[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7787591	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7795946	0.91[CEU][hapmap];0.83[YRI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv518070	chr7:137534627-137808839	Enhancers Flanking Active TSS Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	17 gene(s)	inside rSNPs	diseases
2	nsv831151	chr7:137711447-137865471	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	14 gene(s)	inside rSNPs	diseases
3	esv34048	chr7:137724092-138213119	Enhancers ZNF genes & repeats Flanking Active TSS Weak transcription Strong transcription Active TSS Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA	35 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:137773600-137775200	Enhancers	HepG2	liver
2	chr7:137773600-137775600	Enhancers	Liver	Liver
3	chr7:137774200-137776400	Enhancers	Primary neutrophils fromperipheralblood	blood
4	chr7:137774800-137776200	Enhancers	Hela-S3	cervix

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