Variant report

Variant	rs871938
Chromosome Location	chr4:7566549-7566550
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:7565122..7567092-chr4:7570466..7572074,2	MCF-7	breast:
2	chr4:7565125..7567674-chr4:7573256..7575494,3	MCF-7	breast:

Extended variants
information (count: 54 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs10014162	0.92[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10470723	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs10937836	0.82[ASN][1000 genomes]
rs11721353	0.89[CHD][hapmap];0.85[JPT][hapmap]
rs11723455	0.94[CHD][hapmap];1.00[JPT][hapmap]
rs11736943	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11937027	0.94[CHD][hapmap]
rs13119421	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs16840505	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs28468677	0.82[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs28519697	0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28703787	0.99[AFR][1000 genomes];0.94[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34289744	0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs34445288	0.89[ASN][1000 genomes]
rs34861707	0.98[ASN][1000 genomes]
rs34996971	0.85[ASN][1000 genomes]
rs35260897	0.89[ASN][1000 genomes]
rs35707377	0.82[ASN][1000 genomes]
rs35789691	0.80[ASN][1000 genomes]
rs36106587	0.94[CHD][hapmap];1.00[JPT][hapmap]
rs4290892	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.90[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4339212	0.85[CHD][hapmap];1.00[JPT][hapmap]
rs4365723	0.94[CHD][hapmap];1.00[JPT][hapmap]
rs4591607	0.91[ASN][1000 genomes]
rs4596239	1.00[JPT][hapmap]
rs4637403	0.94[CHD][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4689138	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs4689139	0.85[ASN][1000 genomes]
rs4689779	0.94[CHD][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs56345748	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6815897	0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6835393	1.00[CEU][hapmap];0.88[CHB][hapmap];1.00[CHD][hapmap];0.81[GIH][hapmap];1.00[JPT][hapmap];0.82[LWK][hapmap];0.94[MEX][hapmap];0.83[MKK][hapmap];0.86[TSI][hapmap];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6839110	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73084716	0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs73214654	0.85[ASN][1000 genomes]
rs7677330	1.00[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs7689754	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7698678	0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs870012	0.98[ASN][1000 genomes]
rs870013	0.88[CHB][hapmap];1.00[JPT][hapmap];0.98[ASN][1000 genomes]
rs871942	0.91[ASN][1000 genomes]
rs874235	1.00[CHB][hapmap];0.86[JPT][hapmap];0.98[ASN][1000 genomes]
rs882266	0.89[CHD][hapmap];1.00[JPT][hapmap]
rs882267	0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:10 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv916610	chr4:7238883-7731946	Bivalent Enhancer Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
2	nsv593569	chr4:7291363-7626136	Flanking Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1011547	chr4:7318232-7637410	Active TSS ZNF genes & repeats Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
4	nsv537017	chr4:7318232-7637410	Weak transcription Flanking Active TSS Bivalent Enhancer Enhancers ZNF genes & repeats Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA miRNA	6 gene(s)	inside rSNPs	diseases
5	esv34156	chr4:7526515-7750588	Active TSS Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Weak transcription ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
6	nsv878570	chr4:7534603-7836835	Bivalent Enhancer Flanking Active TSS Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
7	esv3356137	chr4:7565152-7569850	Enhancers Weak transcription ZNF genes & repeats Bivalent/Poised TSS Active TSS Flanking Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
8	esv3353976	chr4:7565952-7569150	Enhancers ZNF genes & repeats Weak transcription Bivalent/Poised TSS Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
9	esv3388667	chr4:7565952-7569350	Enhancers Weak transcription Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	n/a	inside rSNPs	diseases
10	esv3447531	chr4:7565952-7569550	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:7563400-7567200	Weak transcription	Fetal Kidney	kidney
2	chr4:7565200-7566600	Enhancers	Brain Cingulate Gyrus	brain
3	chr4:7565200-7566800	Enhancers	Brain Inferior Temporal Lobe	brain
4	chr4:7565400-7566600	Enhancers	Brain Substantia Nigra	brain
5	chr4:7565600-7566800	Enhancers	Liver	Liver
6	chr4:7565800-7566600	Enhancers	Fetal Intestine Small	intestine
7	chr4:7565800-7566600	Enhancers	Left Ventricle	heart
8	chr4:7565800-7566800	Enhancers	Brain Hippocampus Middle	brain
9	chr4:7565800-7566800	Enhancers	Ovary	ovary
10	chr4:7566200-7566600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
11	chr4:7566400-7566800	Enhancers	HepG2	liver
12	chr4:7566400-7567000	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr4:7566400-7573400	Weak transcription	Spleen	Spleen

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