Variant report

Variant	rs31660
Chromosome Location	chr7:87044443-87044444
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:14)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:14 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr7:87039253..87041536-chr7:87044020..87045939,2	K562	blood:
2	chr7:86941239..86942263-chr7:87043678..87045087,6	K562	blood:
3	chr7:87042243..87044044-chr7:87044157..87046245,3	MCF-7	breast:
4	chr7:86972445..86978400-chr7:87040084..87047120,21	MCF-7	breast:
5	chr7:86940770..86949819-chr7:87040881..87047482,46	MCF-7	breast:
6	chr7:87029499..87035075-chr7:87040602..87045822,9	MCF-7	breast:
7	chr7:86940706..86943754-chr7:87040943..87048765,8	MCF-7	breast:
8	chr7:86967043..86968640-chr7:87043490..87046255,2	MCF-7	breast:
9	chr7:86965004..86967004-chr7:87042803..87044523,2	MCF-7	breast:
10	chr7:87005406..87005998-chr7:87044003..87044625,2	MCF-7	breast:
11	chr7:87043780..87045715-chr7:87084104..87086345,2	MCF-7	breast:
12	chr7:86970832..86977598-chr7:87040586..87050035,26	MCF-7	breast:
13	chr7:86946093..86951031-chr7:87040729..87046764,10	MCF-7	breast:
14	chr7:87042569..87044840-chr7:87046339..87049355,4	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000005469	Chromatin interaction
ENSG00000182165	Chromatin interaction
ENSG00000005471	Chromatin interaction

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:45)

rs_ID	r²[population]
rs1089472	1.00[CEU][hapmap];0.83[GIH][hapmap];0.83[JPT][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs12154399	0.90[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs13227722	0.91[ASN][1000 genomes]
rs1526090	0.84[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1608949	0.89[JPT][hapmap];0.91[ASN][1000 genomes]
rs2072207	0.84[CHB][hapmap];0.94[CHD][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs2097937	0.93[ASN][1000 genomes]
rs2373593	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs258962	0.90[CEU][hapmap];0.82[TSI][hapmap];0.92[EUR][1000 genomes]
rs258963	1.00[CEU][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes]
rs258964	0.84[EUR][1000 genomes]
rs258965	1.00[CEU][hapmap];0.83[GIH][hapmap];0.89[JPT][hapmap];1.00[LWK][hapmap];0.82[MEX][hapmap];1.00[MKK][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs28860289	0.82[ASN][1000 genomes]
rs31627	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31629	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31630	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31632	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31634	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31635	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31640	0.84[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31644	1.00[CEU][hapmap];0.89[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31645	1.00[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31649	0.94[AMR][1000 genomes];0.97[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs31651	1.00[CEU][hapmap];0.84[CHB][hapmap];0.97[CHD][hapmap];0.89[GIH][hapmap];0.94[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs31652	0.84[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap];0.84[TSI][hapmap];0.90[ASN][1000 genomes]
rs31653	1.00[CEU][hapmap];0.89[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.95[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs31658	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31659	1.00[CEU][hapmap];0.95[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs31662	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs31675	0.87[MKK][hapmap]
rs39606	1.00[CEU][hapmap];0.89[CHB][hapmap];0.94[CHD][hapmap];0.89[GIH][hapmap];1.00[JPT][hapmap];0.91[MEX][hapmap];1.00[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs4148830	0.95[CHB][hapmap];1.00[JPT][hapmap]
rs6465112	0.93[ASN][1000 genomes]
rs6465113	0.93[ASN][1000 genomes]
rs6949638	0.83[JPT][hapmap]
rs6956194	0.84[ASN][1000 genomes]
rs6974811	0.86[ASN][1000 genomes]
rs701339	0.81[MEX][hapmap];0.83[EUR][1000 genomes]
rs7800359	0.91[ASN][1000 genomes]
rs802042	1.00[CEU][hapmap];0.89[JPT][hapmap];0.92[EUR][1000 genomes]
rs802054	1.00[LWK][hapmap];0.81[MEX][hapmap];1.00[MKK][hapmap];0.83[EUR][1000 genomes]
rs802055	0.81[EUR][1000 genomes]
rs802057	0.83[EUR][1000 genomes]
rs802062	1.00[CEU][hapmap];0.89[JPT][hapmap];0.82[MEX][hapmap];0.88[TSI][hapmap];0.92[EUR][1000 genomes]
rs9655950	0.94[ASN][1000 genomes]

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	nsv1025277	chr7:86299224-87206007	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
2	nsv538999	chr7:86299224-87206007	Flanking Active TSS Enhancers Weak transcription Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
3	nsv532147	chr7:86299225-87121975	Flanking Active TSS Strong transcription Enhancers Active TSS Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	85 gene(s)	inside rSNPs	diseases
4	nsv888677	chr7:86802025-87781111	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	53 gene(s)	inside rSNPs	diseases
5	nsv464622	chr7:86832603-87541248	Weak transcription Flanking Active TSS Genic enhancers Enhancers Transcr. at gene 5' and 3' Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
6	nsv607725	chr7:86832603-87541248	Weak transcription Enhancers Strong transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
7	nsv1029486	chr7:86856387-87121976	Weak transcription Enhancers Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
8	nsv539004	chr7:86856387-87121976	Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Weak transcription Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
9	esv1828294	chr7:86857553-87147397	Weak transcription Bivalent/Poised TSS Strong transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
10	nsv1024376	chr7:86905796-87129346	Weak transcription Flanking Active TSS Enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
11	nsv1026153	chr7:86905796-87258822	Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	35 gene(s)	inside rSNPs	diseases
12	nsv888678	chr7:86932085-87101407	Active TSS Strong transcription Weak transcription Flanking Active TSS Genic enhancers Enhancers ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
13	esv3382480	chr7:87031452-87133648	Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
14	nsv464623	chr7:87040629-87139316	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
15	nsv607726	chr7:87040629-87139316	Weak transcription Active TSS Flanking Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:33 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:86980000-87085600	Weak transcription	Right Ventricle	heart
2	chr7:86987000-87051800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
3	chr7:87019800-87079400	Strong transcription	Liver	Liver
4	chr7:87024800-87093200	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
5	chr7:87034600-87051000	Weak transcription	Fetal Heart	heart
6	chr7:87037400-87064800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
7	chr7:87039400-87045400	Weak transcription	Primary B cells from cord blood	blood
8	chr7:87040000-87046000	Strong transcription	Primary B cells from peripheral blood	blood
9	chr7:87040800-87050400	Weak transcription	Left Ventricle	heart
10	chr7:87040800-87072400	Weak transcription	Aorta	Aorta
11	chr7:87040800-87085600	Weak transcription	Psoas Muscle	Psoas
12	chr7:87042000-87044600	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr7:87042000-87044600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
14	chr7:87042200-87044600	Enhancers	NH-A	brain
15	chr7:87042200-87044800	Enhancers	Cortex derived primary cultured neurospheres	brain
16	chr7:87042200-87045600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr7:87042600-87044600	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
18	chr7:87043000-87044600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
19	chr7:87043000-87044600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr7:87043000-87044600	Enhancers	NHDF-Ad	bronchial
21	chr7:87043200-87044800	Enhancers	Fetal Intestine Large	intestine
22	chr7:87043200-87044800	Enhancers	Fetal Intestine Small	intestine
23	chr7:87043800-87044600	Enhancers	HepG2	liver
24	chr7:87043800-87046600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
25	chr7:87043800-87049600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr7:87044000-87046600	Weak transcription	Skeletal Muscle Female	skeletal muscle
27	chr7:87044000-87052600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
28	chr7:87044200-87044600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr7:87044200-87044600	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr7:87044400-87044600	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr7:87044400-87044600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr7:87044400-87044600	Enhancers	Esophagus	oesophagus
33	chr7:87044400-87045600	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links