Variant report

Variant	rs1197289
Chromosome Location	chr3:133087067-133087068
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs1109858	0.82[JPT][hapmap]
rs1197287	0.82[JPT][hapmap]
rs1197293	0.81[CEU][hapmap];0.87[CHB][hapmap];0.91[JPT][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1197297	0.82[CHB][hapmap]
rs1201673	0.81[CHB][hapmap];0.80[ASN][1000 genomes]
rs12631678	0.82[CHB][hapmap]
rs1708385	0.86[CHB][hapmap]
rs1795101	0.83[JPT][hapmap]
rs2089987	0.83[CHB][hapmap]
rs2699880	0.82[CHB][hapmap]
rs4854720	0.83[CHB][hapmap]
rs6802663	0.80[ASN][1000 genomes]
rs869751	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs938229	1.00[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs938230	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs938231	0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9850193	0.82[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877503	chr3:133035774-133104631	Bivalent/Poised TSS Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:133080800-133098600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
2	chr3:133081800-133090000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
3	chr3:133083200-133099200	Weak transcription	Lung	lung
4	chr3:133085600-133088200	Enhancers	Fetal Brain Male	brain
5	chr3:133085800-133088000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
6	chr3:133085800-133091600	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr3:133086200-133088400	Enhancers	Brain Substantia Nigra	brain
8	chr3:133086200-133088600	Enhancers	Fetal Lung	lung
9	chr3:133086200-133090200	Enhancers	Fetal Brain Female	brain
10	chr3:133086200-133090800	Enhancers	Brain Cingulate Gyrus	brain
11	chr3:133086400-133090400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
12	chr3:133086600-133087600	Enhancers	Brain Inferior Temporal Lobe	brain
13	chr3:133086600-133088000	Enhancers	Brain Hippocampus Middle	brain
14	chr3:133086600-133088000	Enhancers	HSMMtube	muscle
15	chr3:133086600-133088200	Enhancers	Brain Anterior Caudate	brain
16	chr3:133086600-133088400	Enhancers	Brain Angular Gyrus	brain
17	chr3:133086800-133087400	Enhancers	Fetal Stomach	stomach
18	chr3:133086800-133088200	Enhancers	Fetal Muscle Leg	muscle
19	chr3:133086800-133089800	Enhancers	Brain Germinal Matrix	brain

Quick Search:

Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

what's new

Quick links