Variant report

Variant	rs1939116
Chromosome Location	chr11:86505600-86505601
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr11:86379027..86389838-chr11:86504553..86514376,29	MCF-7	breast:
2	chr11:86501626..86503542-chr11:86505190..86506706,2	K562	blood:

Variant related genes	Relation type
ENSG00000151376	Chromatin interaction
ENSG00000150687	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:62)

rs_ID	r²[population]
rs10751141	0.83[CHB][hapmap]
rs11234809	0.83[ASN][1000 genomes]
rs11601553	0.82[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs11602695	0.95[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs12361769	0.81[ASN][1000 genomes]
rs12366016	0.81[ASN][1000 genomes]
rs12420039	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12421517	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12421942	0.95[ASN][1000 genomes]
rs12574979	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12802848	0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs12809023	0.83[ASN][1000 genomes]
rs17211926	1.00[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17212012	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17819068	0.87[CEU][hapmap];0.83[CHB][hapmap];0.82[JPT][hapmap];0.94[YRI][hapmap]
rs17819134	0.91[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17819181	0.91[CHB][hapmap];0.86[JPT][hapmap]
rs17819187	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1939110	0.86[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs1939111	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1939112	0.92[CHB][hapmap];0.86[JPT][hapmap];0.82[ASN][1000 genomes]
rs1939113	1.00[CEU][hapmap];0.95[CHB][hapmap];0.84[JPT][hapmap];0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1939114	1.00[CEU][hapmap];0.95[CHB][hapmap];0.85[JPT][hapmap];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1939115	0.98[ASN][1000 genomes]
rs1939117	0.83[ASN][1000 genomes]
rs1954769	1.00[CEU][hapmap];0.92[CHB][hapmap];0.95[JPT][hapmap];0.94[AMR][1000 genomes];0.85[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2005192	0.87[CHB][hapmap]
rs2155080	0.83[ASN][1000 genomes]
rs2155081	0.91[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs28517777	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs35902217	0.83[ASN][1000 genomes]
rs36061072	0.83[ASN][1000 genomes]
rs3809048	1.00[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4128368	0.86[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4269941	1.00[CEU][hapmap];0.82[CHB][hapmap];0.81[JPT][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4291699	0.82[ASN][1000 genomes]
rs4304806	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4307743	0.81[JPT][hapmap]
rs4307748	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs4423210	0.85[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4485132	0.95[CHB][hapmap];0.86[JPT][hapmap];0.83[ASN][1000 genomes]
rs4495915	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4570601	0.81[JPT][hapmap];0.82[ASN][1000 genomes]
rs4944630	0.82[JPT][hapmap]
rs55646317	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs58512185	0.96[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs58976693	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs60023003	0.83[AMR][1000 genomes]
rs61707378	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6592315	0.83[ASN][1000 genomes]
rs6592317	0.82[CHB][hapmap]
rs7105467	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7108490	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7120185	0.82[ASN][1000 genomes]
rs7120320	0.82[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs7123349	0.83[ASN][1000 genomes]
rs7126492	0.82[CHB][hapmap];0.81[JPT][hapmap];0.84[ASN][1000 genomes]
rs7131625	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[JPT][hapmap];0.90[AMR][1000 genomes];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs744292	0.89[AFR][1000 genomes];0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7940201	0.86[ASN][1000 genomes]
rs7948063	0.81[JPT][hapmap]
rs7951582	0.81[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1044081	chr11:86133641-86868560	Bivalent/Poised TSS Weak transcription Active TSS Enhancers Flanking Active TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv541118	chr11:86133641-86868560	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv428263	chr11:86357990-86508480	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	nsv521505	chr11:86438115-86515072	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
5	esv2756074	chr11:86456552-86729552	Enhancers Weak transcription Active TSS Bivalent Enhancer Strong transcription Flanking Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr11:86495400-86510400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr11:86497000-86510000	Weak transcription	Rectal Smooth Muscle	rectum
3	chr11:86500000-86506400	Enhancers	Hela-S3	cervix
4	chr11:86502000-86505600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr11:86502400-86509800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr11:86502400-86510800	Weak transcription	Fetal Intestine Large	intestine
7	chr11:86502600-86506400	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
8	chr11:86502600-86511000	Weak transcription	Fetal Kidney	kidney
9	chr11:86502800-86505600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
10	chr11:86503000-86506400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
11	chr11:86503400-86510400	Weak transcription	Fetal Lung	lung
12	chr11:86503600-86510600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr11:86503600-86510800	Weak transcription	Pancreas	Pancrea
14	chr11:86504600-86510800	Weak transcription	Skeletal Muscle Female	skeletal muscle
15	chr11:86504600-86511000	Weak transcription	Psoas Muscle	Psoas
16	chr11:86505200-86505600	Enhancers	HUVEC	blood vessel
17	chr11:86505200-86510400	Weak transcription	Skeletal Muscle Male	skeletal muscle
18	chr11:86505400-86506800	Enhancers	A549	lung
19	chr11:86505600-86506600	Weak transcription	HUVEC	blood vessel
20	chr11:86505600-86510600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
21	chr11:86505600-86510800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--

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