Variant report

Variant	rs62144965
Chromosome Location	chr2:31652807-31652808
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr2:31647816..31650394-chr2:31651121..31653448,2	K562	blood:
2	chr2:31644783..31646814-chr2:31651303..31655171,3	MCF-7	breast:

Extended variants
information (count: 43 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:32)

rs_ID	r²[population]
rs10175754	1.00[ASN][1000 genomes]
rs10199855	1.00[ASN][1000 genomes]
rs11888215	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11892663	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11893761	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11898845	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13418515	1.00[ASN][1000 genomes]
rs13431382	1.00[ASN][1000 genomes]
rs1366814	1.00[ASN][1000 genomes]
rs17011422	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17011431	0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4560159	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs62141162	0.92[EUR][1000 genomes]
rs62141163	0.81[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62141164	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62141165	1.00[ASN][1000 genomes]
rs62141166	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62141174	0.84[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62141225	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142956	0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142957	0.87[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62142958	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62144961	0.94[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62144962	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62144963	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62144964	0.83[AFR][1000 genomes];0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6713694	0.83[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs6738435	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6759319	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790669	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72790675	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72794605	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949028	chr2:31502801-31665108	Flanking Active TSS Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Genic enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases
2	nsv532648	chr2:31591498-32312698	Weak transcription Enhancers Active TSS Flanking 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	39 gene(s)	inside rSNPs	diseases
3	nsv456030	chr2:31598823-31820256	Enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv456041	chr2:31598823-31820256	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
5	nsv581269	chr2:31598823-31820256	Weak transcription Strong transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
6	nsv998853	chr2:31601455-31858961	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
7	nsv1005565	chr2:31603134-31868877	Genic enhancers Active TSS Bivalent Enhancer Enhancers Strong transcription Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
8	nsv1007179	chr2:31616112-31835410	Enhancers Flanking Active TSS Bivalent Enhancer Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	nsv1005032	chr2:31616112-31867450	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Weak transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1013891	chr2:31629179-31854283	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
11	nsv535612	chr2:31629179-31854283	Enhancers Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:31648600-31654200	Enhancers	Breast Myoepithelial Primary Cells	Breast
2	chr2:31650000-31653000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr2:31650600-31654200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr2:31650800-31654400	Enhancers	HMEC	breast
5	chr2:31651000-31654200	Enhancers	NHEK	skin
6	chr2:31651200-31654200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr2:31651400-31653000	Weak transcription	Esophagus	oesophagus
8	chr2:31651600-31653000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
9	chr2:31651800-31653400	Enhancers	Primary T helper cells PMA-I stimulated	--
10	chr2:31651800-31653600	Enhancers	Rectal Mucosa Donor 31	rectum
11	chr2:31651800-31654000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
12	chr2:31652000-31653400	Enhancers	Primary T helper naive cells from peripheral blood	blood
13	chr2:31652200-31654000	Enhancers	Hela-S3	cervix
14	chr2:31652400-31653400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr2:31652400-31653400	Enhancers	Primary T helper cells fromperipheralblood	blood
16	chr2:31652400-31654000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
17	chr2:31652600-31653200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
18	chr2:31652600-31653400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
19	chr2:31652600-31653400	Enhancers	A549	lung
20	chr2:31652600-31653400	Bivalent Enhancer	Dnd41	blood
21	chr2:31652600-31653400	Enhancers	NHDF-Ad	bronchial
22	chr2:31652600-31653600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
23	chr2:31652600-31654000	Bivalent Enhancer	Primary T cells fromperipheralblood	blood
24	chr2:31652600-31654200	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
25	chr2:31652800-31653000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
26	chr2:31652800-31653000	Enhancers	Placenta	Placenta
27	chr2:31652800-31653400	Enhancers	Primary T cells from cord blood	blood
28	chr2:31652800-31653400	Enhancers	Primary T helper naive cells fromperipheralblood	blood
29	chr2:31652800-31653400	Enhancers	Primary T regulatory cells fromperipheralblood	blood
30	chr2:31652800-31653400	Enhancers	Primary T killer memory cells from peripheral blood	blood
31	chr2:31652800-31653600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
32	chr2:31652800-31653800	Enhancers	Stomach Mucosa	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links