Variant report

Variant	rs7687980
Chromosome Location	chr4:158954264-158954265
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	chr4:158952617..158955864-chr4:158956741..158959596,3	MCF-7	breast:
2	chr4:158934945..158937629-chr4:158953752..158956012,2	MCF-7	breast:

Extended variants
information (count: 78 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:75)

rs_ID	r²[population]
rs10018872	1.00[CEU][hapmap]
rs10022190	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10024133	1.00[CEU][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs10517689	1.00[CEU][hapmap]
rs11100150	0.82[GIH][hapmap];1.00[TSI][hapmap]
rs11100151	1.00[CEU][hapmap]
rs11731973	1.00[JPT][hapmap]
rs11938464	1.00[CEU][hapmap]
rs12502811	1.00[CEU][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap]
rs12511679	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs12511713	0.82[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs13101806	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13105388	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13105599	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13119344	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13123367	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13128845	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13149552	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1320370	1.00[CEU][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs1320371	1.00[CEU][hapmap]
rs17036867	0.86[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs17036927	1.00[CEU][hapmap];0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2346320	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs2346381	1.00[CEU][hapmap]
rs2346776	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs2346780	1.00[CEU][hapmap]
rs2346783	1.00[CEU][hapmap]
rs28717075	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34009182	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34030902	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34131483	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34387852	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34535065	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34735033	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs34765608	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35346320	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35439222	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35465944	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs35473373	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs35518318	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs36069561	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4389619	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4391084	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs4472184	1.00[CEU][hapmap]
rs4569796	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4582199	1.00[CEU][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs4627913	1.00[CEU][hapmap]
rs4690893	1.00[CEU][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap]
rs4691456	1.00[CEU][hapmap]
rs4691457	1.00[CEU][hapmap]
rs4691458	1.00[CEU][hapmap]
rs4691462	1.00[CEU][hapmap]
rs4691463	1.00[CEU][hapmap]
rs4691464	1.00[CEU][hapmap]
rs4691465	1.00[CEU][hapmap]
rs4691467	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs5004547	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6536292	1.00[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6812635	1.00[CEU][hapmap]
rs6821598	1.00[CEU][hapmap]
rs6832099	1.00[CEU][hapmap]
rs6846661	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6849902	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs6852646	1.00[CEU][hapmap]
rs6855420	1.00[CEU][hapmap]
rs71607171	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7437833	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7664258	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7664738	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7665295	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7671094	1.00[CEU][hapmap];1.00[CHD][hapmap];0.82[GIH][hapmap];1.00[TSI][hapmap]
rs7671501	1.00[CEU][hapmap]
rs7671934	1.00[CEU][hapmap];1.00[CHD][hapmap];1.00[TSI][hapmap]
rs7691126	0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7695599	1.00[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	nsv993476	chr4:158550643-159202015	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1030124	chr4:158758675-159251140	Bivalent/Poised TSS Enhancers Active TSS Flanking Active TSS Weak transcription Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases
3	nsv881288	chr4:158891733-159028080	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:158939800-158955200	Weak transcription	Ovary	ovary
2	chr4:158947200-158954600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:158949200-158958000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
4	chr4:158953200-158954400	Enhancers	Fetal Intestine Large	intestine
5	chr4:158953400-158955200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
6	chr4:158953400-158955600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
7	chr4:158953400-158955600	Enhancers	Primary monocytes fromperipheralblood	blood
8	chr4:158953400-158955600	Enhancers	Fetal Intestine Small	intestine
9	chr4:158953800-158955200	Enhancers	Duodenum Mucosa	Duodenum
10	chr4:158953800-158955200	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
11	chr4:158953800-158955600	Enhancers	HepG2	liver
12	chr4:158954000-158954600	Enhancers	Fetal Heart	heart
13	chr4:158954000-158954800	Enhancers	Osteobl	bone
14	chr4:158954000-158955000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr4:158954000-158955600	Enhancers	HSMMtube	muscle
16	chr4:158954200-158954400	Enhancers	Colon Smooth Muscle	Colon
17	chr4:158954200-158955000	Enhancers	Muscle Satellite Cultured Cells	--
18	chr4:158954200-158955000	Flanking Active TSS	HUVEC	blood vessel

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links