Variant report

Variant	rs16831307
Chromosome Location	chr2:153390922-153390923
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	chr2:153390268..153392701-chr2:153393879..153395871,2	K562	blood:

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs10165830	0.89[ASN][1000 genomes]
rs10168692	0.96[CEU][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10168793	0.96[CEU][hapmap];0.96[CHB][hapmap];1.00[JPT][hapmap];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs10172230	1.00[CHB][hapmap];0.91[JPT][hapmap];0.83[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10182254	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs10209069	0.96[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10211164	0.84[ASN][1000 genomes]
rs10931154	0.85[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11904088	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12612608	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs12613219	0.82[ASN][1000 genomes]
rs12619679	0.83[AMR][1000 genomes];0.89[ASN][1000 genomes]
rs12619706	0.82[ASN][1000 genomes]
rs12622731	0.82[AFR][1000 genomes];0.95[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13404703	1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs13427485	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs2346182	0.82[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2577182	1.00[CEU][hapmap];1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4664592	0.82[CHB][hapmap];0.95[JPT][hapmap];0.82[ASN][1000 genomes]
rs4664593	0.82[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs7581544	0.82[ASN][1000 genomes]
rs893331	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9288108	0.80[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.91[ASN][1000 genomes]

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	esv3693436	chr2:153219836-153479857	Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1013777	chr2:153273637-153538546	Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv834420	chr2:153339646-153535460	Weak transcription Flanking Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:153361000-153398600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr2:153382400-153393400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr2:153382400-153398800	Weak transcription	Fetal Intestine Small	intestine
4	chr2:153383000-153391000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
5	chr2:153383000-153391200	Weak transcription	Aorta	Aorta
6	chr2:153383000-153392000	Weak transcription	Lung	lung
7	chr2:153383000-153403000	Weak transcription	Right Atrium	heart
8	chr2:153383200-153393200	Weak transcription	NHEK	skin
9	chr2:153383600-153391400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr2:153384000-153398200	Weak transcription	HMEC	breast
11	chr2:153386200-153399000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
12	chr2:153386200-153399000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr2:153386600-153391400	Weak transcription	Brain Angular Gyrus	brain
14	chr2:153386800-153392200	Weak transcription	Fetal Stomach	stomach
15	chr2:153386800-153400000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr2:153387000-153391000	Weak transcription	HUES64 Cell Line	embryonic stem cell
17	chr2:153387000-153392600	Weak transcription	Cortex derived primary cultured neurospheres	brain
18	chr2:153387600-153392800	Weak transcription	Fetal Kidney	kidney
19	chr2:153389000-153398200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr2:153389800-153396200	Enhancers	Brain Hippocampus Middle	brain
21	chr2:153390400-153391200	Enhancers	NHDF-Ad	bronchial
22	chr2:153390400-153391600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
23	chr2:153390400-153396400	Enhancers	Brain Anterior Caudate	brain
24	chr2:153390400-153399000	Enhancers	Brain Substantia Nigra	brain
25	chr2:153390600-153391200	Weak transcription	Fetal Brain Female	brain
26	chr2:153390600-153391200	Enhancers	Skeletal Muscle Male	skeletal muscle
27	chr2:153390600-153391400	Enhancers	Colon Smooth Muscle	Colon
28	chr2:153390600-153391800	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr2:153390600-153392000	Enhancers	HepG2	liver
30	chr2:153390600-153394400	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
31	chr2:153390800-153391200	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
32	chr2:153390800-153391200	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr2:153390800-153391800	Active TSS	Psoas Muscle	Psoas
34	chr2:153390800-153392000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
35	chr2:153390800-153392000	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
36	chr2:153390800-153392000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
37	chr2:153390800-153392800	Enhancers	Duodenum Smooth Muscle	Duodenum
38	chr2:153390800-153393400	Enhancers	Ovary	ovary
39	chr2:153390800-153395000	Enhancers	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links