Variant report

Variant	rs7610407
Chromosome Location	chr3:89226253-89226254
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs10779990	0.83[JPT][hapmap]
rs11128067	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs11128068	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11128069	0.83[JPT][hapmap]
rs12633482	0.83[JPT][hapmap]
rs12638746	0.81[CHB][hapmap];0.91[JPT][hapmap]
rs12714732	0.82[JPT][hapmap]
rs13075167	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs35712958	0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4128782	0.96[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap]
rs55849666	1.00[AFR][1000 genomes];0.95[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6792104	0.89[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6797260	0.82[CHB][hapmap];0.95[JPT][hapmap]
rs7428438	0.88[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.85[ASN][1000 genomes]
rs7428598	0.83[JPT][hapmap]
rs7429534	0.83[JPT][hapmap]
rs9835094	0.83[JPT][hapmap]
rs9883199	0.83[JPT][hapmap]

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	nsv834760	chr3:89085529-89299398	Enhancers Flanking Active TSS Weak transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv997874	chr3:89188275-89279573	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1008916	chr3:89206065-89241915	Weak transcription Enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	2 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	chr3:89221600-89228600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
2	chr3:89221600-89233400	Weak transcription	Gastric	stomach
3	chr3:89221800-89228600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
4	chr3:89221800-89228800	Weak transcription	Brain Angular Gyrus	brain
5	chr3:89222000-89226400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr3:89222000-89228400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr3:89222000-89228400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
8	chr3:89222400-89228400	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
9	chr3:89222600-89233600	Weak transcription	Brain Germinal Matrix	brain
10	chr3:89222800-89226800	Weak transcription	Fetal Brain Female	brain
11	chr3:89223400-89228600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr3:89223600-89228400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
13	chr3:89223600-89228600	Weak transcription	HUES48 Cell Line	embryonic stem cell
14	chr3:89223800-89228600	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr3:89224400-89228800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr3:89224600-89228200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
17	chr3:89226000-89226400	Enhancers	Dnd41	blood
18	chr3:89226200-89226800	Enhancers	Fetal Brain Male	brain
19	chr3:89226200-89227200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived

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dbSNP/dbVar ID: rs12345 /nsv7879
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chromosomal regions: chr1:12345-34567

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