Variant report

Variant	rs4679667
Chromosome Location	chr3:160645934-160645935
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:43446010..43448683-chr3:160643652..160646343,2	MCF-7	breast:
2	chr3:160472205..160475106-chr3:160642642..160646025,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000163590	Chromatin interaction
ENSG00000260572	Chromatin interaction

Extended variants
information (count: 73 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:72)

rs_ID	r²[population]
rs10513558	1.00[CEU][hapmap];0.86[JPT][hapmap];0.94[EUR][1000 genomes]
rs11709802	1.00[CEU][hapmap];0.93[JPT][hapmap];0.91[YRI][hapmap];0.90[EUR][1000 genomes]
rs12494673	0.86[JPT][hapmap]
rs12496196	0.92[CEU][hapmap]
rs12498008	1.00[CEU][hapmap];0.80[JPT][hapmap];0.84[YRI][hapmap]
rs12634368	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12635022	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12696110	1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs13079358	0.90[CEU][hapmap]
rs13079792	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs13086445	0.96[EUR][1000 genomes]
rs1348977	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes]
rs1374786	0.85[EUR][1000 genomes]
rs1447608	0.86[JPT][hapmap]
rs1447616	0.90[EUR][1000 genomes]
rs1447617	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes]
rs1447624	0.93[JPT][hapmap]
rs1530635	0.85[EUR][1000 genomes]
rs1562466	1.00[CEU][hapmap];0.91[YRI][hapmap];0.85[EUR][1000 genomes]
rs1599382	0.80[JPT][hapmap]
rs16831758	1.00[CEU][hapmap];0.80[JPT][hapmap];0.84[YRI][hapmap]
rs1839020	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs1868104	1.00[CEU][hapmap];0.93[JPT][hapmap];0.92[EUR][1000 genomes]
rs1868106	1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs1971240	1.00[CEU][hapmap];0.80[JPT][hapmap]
rs2028988	1.00[CEU][hapmap];0.93[JPT][hapmap];0.89[EUR][1000 genomes]
rs2121721	0.85[JPT][hapmap]
rs4608736	0.83[EUR][1000 genomes]
rs4679925	0.94[EUR][1000 genomes]
rs4679927	0.85[EUR][1000 genomes]
rs6441333	0.89[EUR][1000 genomes]
rs6441334	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes]
rs6441336	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes]
rs6441342	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6441343	0.94[EUR][1000 genomes]
rs6441344	1.00[CEU][hapmap];0.94[EUR][1000 genomes]
rs6770488	1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.93[ASN][1000 genomes]
rs6776120	0.93[JPT][hapmap]
rs6785844	1.00[CEU][hapmap];0.94[CHB][hapmap];0.80[JPT][hapmap];0.90[EUR][1000 genomes]
rs6787694	1.00[CEU][hapmap];0.85[EUR][1000 genomes]
rs6789195	1.00[CEU][hapmap];0.93[CHB][hapmap];0.93[JPT][hapmap];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6797498	0.93[JPT][hapmap];0.91[EUR][1000 genomes]
rs6799391	1.00[CEU][hapmap];0.94[CHB][hapmap];0.93[JPT][hapmap];0.90[EUR][1000 genomes]
rs6800013	0.89[EUR][1000 genomes]
rs6800092	0.91[ASN][1000 genomes]
rs6808386	0.80[JPT][hapmap]
rs7610732	1.00[CEU][hapmap];0.93[JPT][hapmap];0.92[YRI][hapmap];0.92[EUR][1000 genomes]
rs7613316	0.80[JPT][hapmap]
rs7616249	0.80[JPT][hapmap]
rs7617759	0.91[CEU][hapmap];0.91[YRI][hapmap]
rs7619552	0.91[EUR][1000 genomes]
rs7629001	0.91[EUR][1000 genomes]
rs7635796	0.80[JPT][hapmap]
rs7636886	0.90[EUR][1000 genomes]
rs7640874	0.80[JPT][hapmap]
rs7644586	0.80[JPT][hapmap]
rs7653744	0.91[EUR][1000 genomes]
rs778644	0.85[EUR][1000 genomes]
rs778647	1.00[CEU][hapmap];0.80[JPT][hapmap];0.92[YRI][hapmap];0.85[EUR][1000 genomes]
rs778650	0.84[CEU][hapmap];0.85[EUR][1000 genomes]
rs778652	0.80[JPT][hapmap]
rs778655	0.86[JPT][hapmap]
rs796610	1.00[CEU][hapmap];0.81[YRI][hapmap];0.85[EUR][1000 genomes]
rs814092	0.85[EUR][1000 genomes]
rs878954	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs878955	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs898676	0.80[JPT][hapmap]
rs935496	0.83[EUR][1000 genomes]
rs935500	0.81[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs9814174	1.00[CEU][hapmap];0.94[CHB][hapmap];0.80[JPT][hapmap];0.88[EUR][1000 genomes]
rs9818081	1.00[CEU][hapmap]
rs9857743	0.80[JPT][hapmap]

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	nsv532666	chr3:159777847-160703202	Enhancers Weak transcription ZNF genes & repeats Strong transcription Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	271 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:160635400-160649200	Weak transcription	Fetal Brain Female	brain
2	chr3:160638200-160647200	Weak transcription	Right Ventricle	heart
3	chr3:160642400-160647200	Weak transcription	Adipose Nuclei	Adipose
4	chr3:160644000-160647800	Enhancers	Skeletal Muscle Female	skeletal muscle
5	chr3:160644400-160647200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
6	chr3:160644400-160647200	Weak transcription	Stomach Smooth Muscle	stomach
7	chr3:160644600-160646000	Weak transcription	Psoas Muscle	Psoas
8	chr3:160644600-160647200	Weak transcription	Cortex derived primary cultured neurospheres	brain
9	chr3:160644600-160647200	Weak transcription	Right Atrium	heart
10	chr3:160644600-160647400	Weak transcription	Brain Cingulate Gyrus	brain
11	chr3:160644800-160647200	Weak transcription	Duodenum Smooth Muscle	Duodenum
12	chr3:160644800-160654400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr3:160645000-160646000	Weak transcription	Left Ventricle	heart
14	chr3:160645000-160648400	Weak transcription	Fetal Brain Male	brain
15	chr3:160645400-160647200	Weak transcription	Fetal Heart	heart
16	chr3:160645600-160646400	Weak transcription	Pancreatic Islets	Pancreatic Islet
17	chr3:160645800-160646600	Enhancers	Skeletal Muscle Male	skeletal muscle

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links