Variant report

Variant	rs12050625
Chromosome Location	chr15:32963817-32963818
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	chr11:61247323..61249397-chr15:32963028..32964731,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ARHGAP11A-7	chr15:32962080-32963900	NONHSAT041521

Variant related genes	Relation type
ENSG00000162148	Chromatin interaction

Extended variants
information (count: 9 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:2)

rs_ID	r²[population]
rs62001853	0.85[EUR][1000 genomes]
rs7161975	0.86[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv431374	chr15:32008985-32976055	Weak transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	47 gene(s)	inside rSNPs	diseases
2	esv2422296	chr15:32798938-33221215	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv469587	chr15:32821940-32986579	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv482780	chr15:32821940-32986579	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
5	nsv456785	chr15:32926076-33352989	Genic enhancers Active TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
6	nsv568913	chr15:32926076-33352989	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv482680	chr15:32958401-33154005	Bivalent Enhancer Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:47 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:32951000-32967400	Weak transcription	Primary monocytes fromperipheralblood	blood
2	chr15:32952200-32972800	Weak transcription	Fetal Brain Female	brain
3	chr15:32952800-32967000	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr15:32953000-32967200	Weak transcription	Monocytes-CD14+_RO01746	blood
5	chr15:32956200-32973800	Weak transcription	HSMM	muscle
6	chr15:32957000-32968400	Weak transcription	Brain Germinal Matrix	brain
7	chr15:32961000-32964000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr15:32961000-32966800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:32961200-32964000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr15:32961200-32976200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr15:32961200-32980200	Weak transcription	Thymus	Thymus
12	chr15:32961600-32969400	Weak transcription	NH-A	brain
13	chr15:32962000-32964400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
14	chr15:32962200-32964000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr15:32962600-32964000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:32962600-32964000	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
17	chr15:32962600-32964000	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr15:32962600-32964400	Weak transcription	Esophagus	oesophagus
19	chr15:32962600-32965000	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
20	chr15:32962600-32965400	Enhancers	Brain Angular Gyrus	brain
21	chr15:32962600-32965400	Enhancers	Brain Cingulate Gyrus	brain
22	chr15:32962600-32969400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr15:32962600-32969600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
24	chr15:32962800-32964000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr15:32962800-32964200	Enhancers	ES-I3 Cell Line	embryonic stem cell
26	chr15:32962800-32968200	Weak transcription	Cortex derived primary cultured neurospheres	brain
27	chr15:32963000-32964000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
28	chr15:32963000-32964000	Weak transcription	Fetal Brain Male	brain
29	chr15:32963000-32964000	Weak transcription	Stomach Smooth Muscle	stomach
30	chr15:32963000-32967600	Weak transcription	A549	lung
31	chr15:32963000-32968400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr15:32963000-32968400	Weak transcription	NHEK	skin
33	chr15:32963000-32974200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr15:32963200-32964000	Enhancers	Brain Hippocampus Middle	brain
35	chr15:32963200-32964000	Enhancers	Brain Substantia Nigra	brain
36	chr15:32963200-32966800	Weak transcription	Pancreatic Islets	Pancreatic Islet
37	chr15:32963200-32967600	Weak transcription	Muscle Satellite Cultured Cells	--
38	chr15:32963200-32969600	Weak transcription	Hela-S3	cervix
39	chr15:32963400-32965400	Enhancers	Brain Anterior Caudate	brain
40	chr15:32963400-32968400	Weak transcription	Liver	Liver
41	chr15:32963400-32969600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr15:32963600-32966800	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
43	chr15:32963600-32969400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
44	chr15:32963800-32964200	Flanking Active TSS	NHDF-Ad	bronchial
45	chr15:32963800-32964800	Flanking Active TSS	Osteobl	bone
46	chr15:32963800-32968400	Weak transcription	HepG2	liver
47	chr15:32963800-32969400	Weak transcription	HUES6 Cell Line	embryonic stem cell

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