Variant report

Variant	rs6965467
Chromosome Location	chr7:116899294-116899295
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	ATF2	chr7:116899124-116899534	GM12878	blood:	n/a	n/a
2	RUNX3	chr7:116899189-116899540	GM12878	blood:	n/a	n/a
3	RUNX3	chr7:116899087-116899619	GM12878	blood:	n/a	n/a
4	NFIC	chr7:116899109-116899634	GM12878	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr7:116897859..116900656-chr7:117824567..117826449,2	K562	blood:
2	chr7:116899094..116902058-chr7:116908237..116910049,2	MCF-7	breast:
3	7:115890993-115892266..7:116894301-116914960	GM12878	blood:
4	7:116754962-116765597..7:116894301-116914960	Hela-S3	cervix:

Variant related genes	Relation type
MTND4P6	TF binding region
ENSG00000135269	Chromatin interaction
ENSG00000004866	Chromatin interaction

Extended variants
information (count: 35 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10226864	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10235236	1.00[CEU][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10245615	0.85[JPT][hapmap]
rs10254103	0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10255896	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10256129	1.00[CEU][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10271623	0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10280067	1.00[CEU][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.92[MEX][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10953839	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11760825	0.84[ASN][1000 genomes]
rs11981089	0.83[CHD][hapmap];0.85[JPT][hapmap];0.86[ASN][1000 genomes]
rs13224335	0.86[ASN][1000 genomes]
rs1468655	1.00[CEU][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1860698	0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2402176	0.80[ASN][1000 genomes]
rs38902	0.84[ASN][1000 genomes]
rs38909	0.86[ASN][1000 genomes]
rs38916	0.84[ASN][1000 genomes]
rs6466605	0.90[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];0.80[MEX][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6466606	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6466607	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6942558	0.85[JPT][hapmap];0.82[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs6946781	0.89[GIH][hapmap];0.89[TSI][hapmap];0.80[YRI][hapmap];0.82[AMR][1000 genomes]
rs6947786	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6958283	0.95[CEU][hapmap];0.90[CHD][hapmap];0.91[GIH][hapmap];0.85[JPT][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6968768	0.82[AMR][1000 genomes];0.87[ASN][1000 genomes]
rs6974937	1.00[CEU][hapmap];0.85[JPT][hapmap];0.80[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6975501	0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6979800	0.93[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs718738	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs739693	0.90[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7457422	0.86[CEU][hapmap];0.86[CHB][hapmap];0.90[JPT][hapmap]
rs7776963	1.00[CEU][hapmap];0.85[JPT][hapmap];0.98[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7802930	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.86[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv831108	chr7:116749534-116952011	Enhancers Weak transcription Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6965467	GPR85	cis	cerebellum	SCAN

Chromatin state (count:7 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:116898800-116900800	Enhancers	Placenta Amnion	Placenta Amnion
2	chr7:116899000-116900800	Enhancers	NHDF-Ad	bronchial
3	chr7:116899200-116900600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr7:116899200-116900600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr7:116899200-116900600	Enhancers	NHEK	skin
6	chr7:116899200-116900800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr7:116899200-116900800	Enhancers	NHLF	lung

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