Variant report

Variant	rs2277160
Chromosome Location	chr9:18504916-18504917
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1006022	0.91[JPT][hapmap];0.89[AMR][1000 genomes];0.86[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10217409	0.91[ASN][1000 genomes]
rs10217753	0.91[CHB][hapmap];0.95[JPT][hapmap];0.87[ASN][1000 genomes]
rs10453192	0.81[EUR][1000 genomes]
rs10733354	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs10738511	0.81[EUR][1000 genomes]
rs10810973	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10810974	0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs1147795	0.96[YRI][hapmap]
rs11793923	0.93[YRI][hapmap];0.81[AFR][1000 genomes];0.83[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12339807	0.85[ASN][1000 genomes]
rs12340914	0.85[ASN][1000 genomes]
rs1281352	0.90[EUR][1000 genomes]
rs1329720	0.87[CHB][hapmap];0.86[JPT][hapmap]
rs1417037	0.89[YRI][hapmap];0.82[EUR][1000 genomes]
rs1538999	0.95[CHB][hapmap];0.95[JPT][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs16936779	0.87[CHB][hapmap]
rs1888068	0.82[YRI][hapmap];0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs1888069	0.88[YRI][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2149875	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2153415	0.92[YRI][hapmap];0.86[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs2153416	0.92[YRI][hapmap];0.85[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs3898100	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs4246142	0.81[EUR][1000 genomes]
rs4246143	0.82[EUR][1000 genomes]
rs4590536	0.82[EUR][1000 genomes]
rs4961651	0.87[EUR][1000 genomes]
rs4961652	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4961653	0.83[CHB][hapmap];0.95[JPT][hapmap]
rs4961654	0.95[JPT][hapmap]
rs6475219	0.81[EUR][1000 genomes]
rs6475220	0.83[CHB][hapmap];0.81[EUR][1000 genomes]
rs6475221	0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7019399	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7032393	0.82[EUR][1000 genomes]
rs7036515	1.00[CHB][hapmap];0.95[JPT][hapmap];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs7046502	0.82[EUR][1000 genomes]
rs7856703	0.84[YRI][hapmap];0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7864622	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs7864727	0.91[CHB][hapmap];0.87[JPT][hapmap]
rs7867766	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491807	chr9:18243672-19009770	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv525659	chr9:18288212-19009041	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1019127	chr9:18288271-18996288	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
4	nsv892688	chr9:18385143-18551247	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
5	nsv1029449	chr9:18414752-18829127	Active TSS Strong transcription Weak transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
6	nsv540077	chr9:18414752-18829127	Enhancers Genic enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
7	nsv1030931	chr9:18414752-18903530	ZNF genes & repeats Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
8	nsv892689	chr9:18485434-18537444	Enhancers Weak transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv892690	chr9:18485434-18592374	Strong transcription Enhancers Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region miRNA	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:18490400-18509400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:18495400-18513200	Weak transcription	HUVEC	blood vessel
3	chr9:18496800-18507000	Weak transcription	NHLF	lung
4	chr9:18500800-18506600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr9:18501600-18510800	Strong transcription	HSMM	muscle
6	chr9:18501600-18520400	Weak transcription	Fetal Stomach	stomach
7	chr9:18502200-18518800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
8	chr9:18502600-18509400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr9:18502800-18507200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr9:18502800-18520400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr9:18503400-18505400	Enhancers	Fetal Heart	heart
12	chr9:18504000-18508600	Strong transcription	Osteobl	bone
13	chr9:18504200-18505200	Enhancers	ES-WA7 Cell Line	embryonic stem cell
14	chr9:18504200-18508000	Strong transcription	NHDF-Ad	bronchial
15	chr9:18504400-18505400	Enhancers	HUES48 Cell Line	embryonic stem cell
16	chr9:18504400-18509400	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:18504600-18505000	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr9:18504600-18505000	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
19	chr9:18504600-18505400	Enhancers	H1 Cell Line	embryonic stem cell
20	chr9:18504600-18505400	Enhancers	HUES6 Cell Line	embryonic stem cell
21	chr9:18504600-18505400	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr9:18504600-18505400	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr9:18504600-18506800	Strong transcription	Muscle Satellite Cultured Cells	--
24	chr9:18504800-18505000	Enhancers	iPS-20b Cell Line	embryonic stem cell
25	chr9:18504800-18505200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr9:18504800-18505600	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
27	chr9:18504800-18508600	Strong transcription	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links