Variant report

Variant	rs1860024
Chromosome Location	chr11:16968816-16968817
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr11:16966796..16968842-chr11:17094768..17096924,2	MCF-7	breast:
2	chr11:16966281..16969842-chr11:16976430..16978510,4	MCF-7	breast:
3	chr11:16966822..16969208-chr11:17097556..17100182,2	MCF-7	breast:
4	chr11:16967067..16971256-chr11:17030990..17035290,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000110700	Chromatin interaction
ENSG00000166689	Chromatin interaction
ENSG00000221322	Chromatin interaction
ENSG00000272034	Chromatin interaction

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:50)

rs_ID	r²[population]
rs10741713	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10766360	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024087	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11024090	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16933680	0.86[CHB][hapmap];0.88[JPT][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16933682	0.88[CHB][hapmap];0.83[JPT][hapmap];0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs16933683	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs16933684	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs177551	0.81[ASN][1000 genomes]
rs177554	0.83[ASN][1000 genomes]
rs177559	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs177560	1.00[CEU][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs177561	0.90[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs177562	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs177563	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1860025	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2108603	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2190752	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2215086	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2353367	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2883150	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35005405	0.83[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs35109048	0.83[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs381815	0.83[JPT][hapmap]
rs393633	0.83[JPT][hapmap]
rs397373	0.82[JPT][hapmap]
rs414219	0.82[JPT][hapmap]
rs425325	0.83[JPT][hapmap]
rs432046	0.82[JPT][hapmap]
rs445205	0.82[JPT][hapmap]
rs448671	0.82[JPT][hapmap]
rs452745	0.82[JPT][hapmap]
rs4756875	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4756876	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4757445	0.90[ASN][1000 genomes]
rs4757449	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4757451	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4757452	1.00[CEU][hapmap];1.00[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4757454	1.00[CEU][hapmap];0.88[CHB][hapmap];0.88[JPT][hapmap];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4757456	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4757457	1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6486326	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6486329	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7111470	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7396552	1.00[CEU][hapmap];1.00[CHB][hapmap];0.81[JPT][hapmap];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs758402	0.83[ASN][1000 genomes]
rs7924696	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7929137	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs7939987	1.00[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.88[ASN][1000 genomes]
rs982811	0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832077	chr11:16834545-17059176	Enhancers Weak transcription Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv7689	chr11:16945953-16990852	Strong transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers ZNF genes & repeats	Chromatin interactive region	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:16955600-16991000	Weak transcription	Right Atrium	heart
2	chr11:16964200-16977800	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr11:16964200-16981400	Weak transcription	Gastric	stomach
4	chr11:16965400-16978200	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr11:16967800-16971200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr11:16968000-16970800	Weak transcription	Brain Anterior Caudate	brain
7	chr11:16968000-16972400	Weak transcription	Brain Substantia Nigra	brain
8	chr11:16968000-16977800	Weak transcription	Pancreas	Pancrea
9	chr11:16968000-16989800	Weak transcription	Esophagus	oesophagus
10	chr11:16968200-16972400	Weak transcription	Duodenum Mucosa	Duodenum
11	chr11:16968400-16971400	Weak transcription	Fetal Intestine Large	intestine
12	chr11:16968400-16975200	Weak transcription	Fetal Kidney	kidney
13	chr11:16968400-16978200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr11:16968400-16980000	Weak transcription	Liver	Liver
15	chr11:16968600-16971000	Strong transcription	Fetal Intestine Small	intestine
16	chr11:16968600-16971800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr11:16968600-16975200	Weak transcription	HepG2	liver
18	chr11:16968600-16975400	Weak transcription	HUES48 Cell Line	embryonic stem cell
19	chr11:16968800-16971200	Weak transcription	Stomach Mucosa	stomach
20	chr11:16968800-16972000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
21	chr11:16968800-16977800	Weak transcription	H1 Cell Line	embryonic stem cell
22	chr11:16968800-16978000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
23	chr11:16968800-16984400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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