Variant report

Variant	rs938230
Chromosome Location	chr3:133088541-133088542
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1114630	0.86[CHD][hapmap]
rs1197287	0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs1197289	1.00[CHB][hapmap];0.95[JPT][hapmap];0.83[AMR][1000 genomes];0.96[ASN][1000 genomes]
rs1197293	0.86[CHB][hapmap];0.95[JPT][hapmap];0.92[ASN][1000 genomes]
rs1197297	0.81[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs1197298	0.89[CHD][hapmap];0.80[TSI][hapmap]
rs1197299	0.86[CHD][hapmap];0.80[TSI][hapmap]
rs1197301	0.82[ASN][1000 genomes]
rs1197304	0.84[CHD][hapmap]
rs1197309	0.82[CHD][hapmap]
rs1197313	0.84[CHD][hapmap]
rs1197314	0.82[CHD][hapmap]
rs1201673	0.81[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.86[TSI][hapmap];0.84[ASN][1000 genomes]
rs12631678	0.81[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs1708385	0.86[CHB][hapmap];0.86[CHD][hapmap];0.81[JPT][hapmap];0.98[LWK][hapmap];0.83[MEX][hapmap];0.89[MKK][hapmap];0.93[TSI][hapmap];0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1795104	0.81[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs1795107	0.86[CHD][hapmap]
rs2089987	0.82[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs2699880	0.82[CHB][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.80[ASN][1000 genomes]
rs3732572	0.81[JPT][hapmap];0.83[MEX][hapmap];0.80[TSI][hapmap];0.82[ASN][1000 genomes]
rs4854583	0.82[ASN][1000 genomes]
rs4854719	0.86[CHD][hapmap];0.81[JPT][hapmap]
rs4854720	0.82[CHB][hapmap];0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs6802663	0.81[JPT][hapmap]
rs869751	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];0.95[GIH][hapmap];0.95[JPT][hapmap];0.91[LWK][hapmap];0.85[YRI][hapmap];0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs938229	0.95[CHB][hapmap];0.93[CHD][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs938231	0.90[ASN][1000 genomes]
rs9850193	0.82[CHB][hapmap];0.81[JPT][hapmap];0.83[MEX][hapmap];0.80[TSI][hapmap];0.82[ASN][1000 genomes]

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:17 , 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	chr3:133085800-133091600	Enhancers	Cortex derived primary cultured neurospheres	brain
5	chr3:133086200-133088600	Enhancers	Fetal Lung	lung
6	chr3:133086200-133090200	Enhancers	Fetal Brain Female	brain
7	chr3:133086200-133090800	Enhancers	Brain Cingulate Gyrus	brain
8	chr3:133086400-133090400	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr3:133086800-133089800	Enhancers	Brain Germinal Matrix	brain
10	chr3:133087600-133088600	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr3:133088000-133089200	Weak transcription	Brain Hippocampus Middle	brain
12	chr3:133088000-133091000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
13	chr3:133088000-133093800	Weak transcription	HSMMtube	muscle
14	chr3:133088200-133089000	Weak transcription	Brain Anterior Caudate	brain
15	chr3:133088200-133089200	Weak transcription	Fetal Brain Male	brain
16	chr3:133088400-133088800	Weak transcription	Brain Angular Gyrus	brain
17	chr3:133088400-133088800	Weak transcription	Brain Substantia Nigra	brain

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