Variant report

Variant	rs10948810
Chromosome Location	chr6:54176227-54176228
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10447407	0.80[EUR][1000 genomes]
rs1150873	0.86[CEU][hapmap];1.00[JPT][hapmap]
rs12191165	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12193042	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12198031	0.93[CEU][hapmap]
rs12198070	0.93[CEU][hapmap]
rs12199953	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201064	0.92[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12201103	0.86[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12204972	0.85[AMR][1000 genomes]
rs12206200	0.80[EUR][1000 genomes]
rs12208501	1.00[JPT][hapmap]
rs12212689	0.80[EUR][1000 genomes]
rs12212836	0.92[CEU][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1298143	0.92[CEU][hapmap]
rs1340660	0.86[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1417390	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs16885122	0.93[CEU][hapmap]
rs16885246	1.00[JPT][hapmap]
rs1934790	0.93[CEU][hapmap]
rs2202801	0.85[AMR][1000 genomes]
rs2297980	0.92[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2754813	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs2792644	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs3957360	0.85[CEU][hapmap]
rs60334573	0.80[EUR][1000 genomes]
rs6937514	0.93[CEU][hapmap]
rs6939568	0.86[CEU][hapmap]
rs73442548	0.80[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7741347	0.93[CEU][hapmap]
rs7746489	0.80[EUR][1000 genomes]
rs843827	0.85[CEU][hapmap];1.00[JPT][hapmap]
rs9296744	0.93[CEU][hapmap]
rs9349700	0.92[CEU][hapmap]
rs9357793	0.93[CEU][hapmap]
rs9357795	0.93[CEU][hapmap]
rs9367556	0.93[CEU][hapmap]
rs9370276	0.93[CEU][hapmap]
rs9382311	0.92[CEU][hapmap]
rs9382318	0.80[EUR][1000 genomes]
rs9382319	0.80[EUR][1000 genomes]
rs9395920	0.92[CEU][hapmap]
rs9464051	0.85[AMR][1000 genomes]
rs9885789	0.93[CEU][hapmap]

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	nsv1067663	chr6:53796341-54449718	Enhancers Active TSS Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv529158	chr6:53796341-54449718	Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	nsv885888	chr6:54132353-54266032	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:54168800-54176400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:54171800-54176600	Active TSS	Rectal Mucosa Donor 29	rectum
3	chr6:54172400-54176600	Active TSS	Duodenum Mucosa	Duodenum
4	chr6:54172800-54176600	Active TSS	Rectal Mucosa Donor 31	rectum
5	chr6:54173000-54178000	Active TSS	Fetal Intestine Large	intestine
6	chr6:54173000-54178200	Active TSS	Fetal Intestine Small	intestine
7	chr6:54176000-54177000	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr6:54176200-54177600	Weak transcription	Fetal Kidney	kidney

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links