Variant report

Variant	rs6479701
Chromosome Location	chr10:52501033-52501034
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:52476123..52479908-chr10:52500945..52503926,3	K562	blood:
2	chr10:52382538..52386733-chr10:52497918..52501112,4	MCF-7	breast:

Variant related genes	Relation type
ENSG00000198964	Chromatin interaction
ENSG00000226200	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10761449	0.83[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10761548	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10821611	0.84[EUR][1000 genomes]
rs10821661	0.80[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10821678	0.96[CEU][hapmap];0.95[CHB][hapmap];0.81[JPT][hapmap]
rs10821684	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821698	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[YRI][hapmap];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10821706	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10821825	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10821846	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10821854	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs10821859	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs10994196	0.91[CEU][hapmap];0.95[CHB][hapmap];0.82[JPT][hapmap]
rs10994492	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16751	0.80[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3802531	1.00[YRI][hapmap];0.81[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4245009	0.91[CEU][hapmap];0.85[CHB][hapmap];0.95[JPT][hapmap]
rs4268458	1.00[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.80[ASN][1000 genomes]
rs4531415	0.80[ASN][1000 genomes]
rs4536153	0.80[AFR][1000 genomes];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4550168	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4617537	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4935006	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4935007	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4935177	0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4935178	0.96[CEU][hapmap];0.95[CHB][hapmap]
rs4935191	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4935192	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56033380	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs61858572	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7068127	0.85[JPT][hapmap]
rs7074369	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7089428	0.80[ASN][1000 genomes]
rs7089955	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7895606	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7913937	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7917358	0.80[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv895393	chr10:52413720-52530819	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv1035197	chr10:52446582-52622349	Flanking Active TSS Active TSS Weak transcription Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	esv1825222	chr10:52477544-52527856	Flanking Active TSS Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
4	nsv948008	chr10:52500270-52536321	Active TSS Flanking Active TSS Enhancers Weak transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52500400-52501200	Enhancers	Primary T helper cells PMA-I stimulated	--
2	chr10:52500600-52503200	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:52500600-52503200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr10:52500600-52503400	Weak transcription	Fetal Lung	lung
5	chr10:52500600-52503600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
6	chr10:52500600-52505200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr10:52500600-52512200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr10:52500800-52501200	Enhancers	Brain Hippocampus Middle	brain
9	chr10:52500800-52501200	Enhancers	Fetal Intestine Small	intestine
10	chr10:52500800-52503200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
11	chr10:52500800-52503400	Weak transcription	HUES6 Cell Line	embryonic stem cell
12	chr10:52500800-52507400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
13	chr10:52500800-52508600	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr10:52501000-52501200	Enhancers	K562	blood
15	chr10:52501000-52506600	Weak transcription	Liver	Liver
16	chr10:52501000-52520200	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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