Variant report

Variant	rs11962881
Chromosome Location	chr6:57176395-57176396
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	chr6:57037957..57039628-chr6:57176354..57177855,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000226803	Chromatin interaction
ENSG00000112208	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10733187	0.81[AMR][1000 genomes]
rs10949017	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11962792	0.96[AMR][1000 genomes];0.91[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1741916	0.81[AMR][1000 genomes]
rs3757294	0.80[AMR][1000 genomes]
rs9382699	0.90[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.85[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	nsv934026	chr6:56382056-57184218	Flanking Bivalent TSS/Enh Strong transcription Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Active TSS Genic enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	49 gene(s)	inside rSNPs	diseases
2	nsv533050	chr6:56504480-57297586	Active TSS Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	44 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	chr6:57170400-57178200	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr6:57171200-57177200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr6:57171200-57178000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr6:57171400-57177000	Weak transcription	HSMM	muscle
5	chr6:57171400-57177600	Weak transcription	Colon Smooth Muscle	Colon
6	chr6:57171400-57178000	Weak transcription	Stomach Smooth Muscle	stomach
7	chr6:57171600-57177200	Weak transcription	NH-A	brain
8	chr6:57171600-57178200	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:57172600-57177600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
10	chr6:57173200-57177400	Weak transcription	NHLF	lung
11	chr6:57173400-57177200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
12	chr6:57173600-57177400	Weak transcription	Osteobl	bone
13	chr6:57175200-57177600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
14	chr6:57175400-57176800	ZNF genes & repeats	H1 Cell Line	embryonic stem cell
15	chr6:57175400-57177200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
16	chr6:57175400-57177400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr6:57175600-57177000	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr6:57175800-57176400	Strong transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
19	chr6:57175800-57177000	Weak transcription	NHDF-Ad	bronchial
20	chr6:57175800-57178000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr6:57176000-57177600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
22	chr6:57176200-57176800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:57176200-57177400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin

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