Variant report

Variant	rs6838823
Chromosome Location	chr4:92370384-92370385
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr12:30949150..30949851-chr4:92369989..92370606,2	Hela-S3	cervix:

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10009559	0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10022644	0.87[CEU][hapmap]
rs10856887	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[YRI][hapmap]
rs12331080	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12498654	0.87[CEU][hapmap]
rs12501170	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12501231	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs12640730	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12649871	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs13123986	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs13138113	0.82[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs13150878	0.92[CEU][hapmap];0.82[CHB][hapmap];0.90[JPT][hapmap]
rs1922216	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[YRI][hapmap]
rs1922217	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1922226	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1922227	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1922228	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1922229	0.92[AMR][1000 genomes];0.94[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1922230	0.85[CHB][hapmap];1.00[JPT][hapmap]
rs1922233	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs1922236	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[YRI][hapmap]
rs1997496	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1997497	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2204873	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs28685630	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6532311	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6821132	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs6824640	0.89[JPT][hapmap]
rs7440542	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7656939	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:15 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869023	chr4:91940838-92935383	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	esv3384271	chr4:92073391-92464275	Active TSS Enhancers Flanking Active TSS ZNF genes & repeats Weak transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv879567	chr4:92215966-92413671	ZNF genes & repeats Enhancers Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	esv1830673	chr4:92241587-92379081	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv879568	chr4:92244300-92429961	Weak transcription ZNF genes & repeats Enhancers Bivalent Enhancer	TF binding region Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv879571	chr4:92281419-92483806	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv879572	chr4:92281419-92510827	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	nsv879573	chr4:92281419-92520419	Weak transcription ZNF genes & repeats Enhancers Active TSS Bivalent Enhancer Flanking Active TSS Strong transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv518645	chr4:92286605-92422256	Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
10	nsv879574	chr4:92304224-92429961	Weak transcription Enhancers Bivalent Enhancer ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
11	nsv427687	chr4:92312672-92466407	Enhancers Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv879575	chr4:92322333-92520419	Weak transcription Enhancers Strong transcription Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	nsv879576	chr4:92356118-92651110	Enhancers Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
14	esv3417177	chr4:92360440-92385422	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
15	nsv966529	chr4:92364990-92374587	Enhancers Weak transcription	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:6 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:92369800-92372000	Enhancers	ES-I3 Cell Line	embryonic stem cell
2	chr4:92370000-92370600	Enhancers	NH-A	brain
3	chr4:92370000-92370800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
4	chr4:92370000-92370800	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr4:92370200-92370400	Enhancers	iPS-15b Cell Line	embryonic stem cell
6	chr4:92370200-92370600	Enhancers	HUES48 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links