Variant report

Variant	rs2021870
Chromosome Location	chr2:36708041-36708042
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	chr1:49284950..49287483-chr2:36706905..36709453,2	MCF-7	breast:

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs1179500	0.95[CEU][hapmap];0.88[EUR][1000 genomes]
rs11886869	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11888819	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11890094	1.00[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[YRI][hapmap];0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11893748	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1403857	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1403858	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1403859	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17018901	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.87[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2022210	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3770839	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3770844	0.91[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.81[AMR][1000 genomes];0.90[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3770845	0.95[CEU][hapmap];1.00[CHB][hapmap];0.91[JPT][hapmap];0.84[AMR][1000 genomes];0.92[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3899034	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4670562	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60970158	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61077474	0.84[AFR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs711249	0.86[CEU][hapmap]
rs7571231	0.95[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.94[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7571475	0.90[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.81[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7598753	0.96[ASN][1000 genomes]
rs848530	0.86[CEU][hapmap]
rs848537	0.95[CEU][hapmap];0.86[EUR][1000 genomes]
rs848538	0.82[CEU][hapmap]
rs848541	0.83[EUR][1000 genomes]
rs950420	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs955601	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833803	chr2:36589065-36745779	Genic enhancers Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
2	nsv581468	chr2:36687111-36715689	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv1010985	chr2:36707157-36942066	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS 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	12 gene(s)	inside rSNPs	diseases
4	nsv535642	chr2:36707157-36942066	Genic enhancers Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer 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

No data

Chromatin state (count:107 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:36687200-36712000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
2	chr2:36688600-36725600	Weak transcription	Small Intestine	intestine
3	chr2:36702000-36709000	Strong transcription	Hela-S3	cervix
4	chr2:36702400-36712000	Genic enhancers	HUVEC	blood vessel
5	chr2:36703200-36709400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr2:36703200-36710600	Strong transcription	iPS-20b Cell Line	embryonic stem cell
7	chr2:36703200-36712600	Genic enhancers	Osteobl	bone
8	chr2:36703200-36717200	Weak transcription	Brain Substantia Nigra	brain
9	chr2:36703400-36710200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
10	chr2:36703400-36712000	Strong transcription	Cortex derived primary cultured neurospheres	brain
11	chr2:36703400-36712800	Strong transcription	HUES64 Cell Line	embryonic stem cell
12	chr2:36703600-36712400	Genic enhancers	NHDF-Ad	bronchial
13	chr2:36703800-36708600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr2:36703800-36708800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
15	chr2:36703800-36709200	Strong transcription	Duodenum Smooth Muscle	Duodenum
16	chr2:36703800-36711600	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
17	chr2:36703800-36713400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
18	chr2:36704000-36709000	Strong transcription	HepG2	liver
19	chr2:36704000-36710200	Strong transcription	ES-I3 Cell Line	embryonic stem cell
20	chr2:36704000-36712000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr2:36704000-36712200	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
22	chr2:36704000-36712600	Genic enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
23	chr2:36704200-36712400	Strong transcription	Fetal Intestine Large	intestine
24	chr2:36704400-36716200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr2:36704600-36711600	Strong transcription	Fetal Muscle Trunk	muscle
26	chr2:36704600-36713200	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr2:36704800-36709400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr2:36704800-36736200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
29	chr2:36705000-36711000	Weak transcription	Fetal Brain Female	brain
30	chr2:36705000-36743200	Weak transcription	Brain Germinal Matrix	brain
31	chr2:36705200-36709400	Strong transcription	Rectal Mucosa Donor 29	rectum
32	chr2:36705200-36710000	Weak transcription	Psoas Muscle	Psoas
33	chr2:36705200-36710600	Weak transcription	Primary B cells from cord blood	blood
34	chr2:36705200-36710600	Weak transcription	Right Atrium	heart
35	chr2:36705200-36712000	Genic enhancers	NHLF	lung
36	chr2:36705200-36712200	Genic enhancers	Muscle Satellite Cultured Cells	--
37	chr2:36705200-36712200	Weak transcription	Fetal Brain Male	brain
38	chr2:36705200-36713800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr2:36705400-36708600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr2:36705600-36709600	Strong transcription	Brain Anterior Caudate	brain
41	chr2:36705800-36711200	Strong transcription	Ovary	ovary
42	chr2:36706000-36709200	Strong transcription	Duodenum Mucosa	Duodenum
43	chr2:36706000-36709400	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr2:36706000-36711000	Strong transcription	Fetal Lung	lung
45	chr2:36706200-36709800	Strong transcription	Skeletal Muscle Male	skeletal muscle
46	chr2:36706200-36710800	Strong transcription	Fetal Muscle Leg	muscle
47	chr2:36706200-36711800	Strong transcription	Rectal Mucosa Donor 31	rectum
48	chr2:36706400-36708200	Strong transcription	Aorta	Aorta
49	chr2:36706400-36709200	Strong transcription	Right Ventricle	heart
50	chr2:36706400-36709400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links