Variant report

Variant	rs12592393
Chromosome Location	chr15:93388928-93388929
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:93362035..93364370-chr15:93388613..93390406,2	K562	blood:
2	chr15:93380616..93384575-chr15:93388777..93392228,3	MCF-7	breast:
3	chr15:93388546..93390834-chr15:93426060..93428356,2	MCF-7	breast:
4	chr15:93384664..93389325-chr15:93424657..93427477,4	MCF-7	breast:
5	chr15:93361450..93364004-chr15:93388773..93390395,2	MCF-7	breast:
6	chr15:93387429..93390014-chrX:12996770..12998336,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000272888	Chromatin interaction
ENSG00000173575	Chromatin interaction

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

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs56281617	0.95[EUR][1000 genomes]
rs7168131	0.93[EUR][1000 genomes]
rs72761916	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs72761917	0.95[EUR][1000 genomes]

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	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
2	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
3	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS 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 miRNA target site	151 gene(s)	inside rSNPs	diseases
4	nsv530846	chr15:93323949-94030462	Active TSS Strong transcription Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	153 gene(s)	inside rSNPs	diseases
5	nsv948881	chr15:93383740-93603608	Genic enhancers Strong transcription Weak transcription Transcr. at gene 5' and 3' Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	91 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:69 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93383400-93390400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr15:93383800-93389200	Weak transcription	Lung	lung
3	chr15:93383800-93396600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
4	chr15:93384000-93389200	Weak transcription	Pancreas	Pancrea
5	chr15:93384000-93394600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr15:93384200-93389200	Weak transcription	Esophagus	oesophagus
7	chr15:93384800-93391800	Weak transcription	Placenta	Placenta
8	chr15:93386000-93389600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
9	chr15:93386000-93389600	Enhancers	Fetal Thymus	thymus
10	chr15:93386200-93390600	Enhancers	Cortex derived primary cultured neurospheres	brain
11	chr15:93386600-93389400	Enhancers	Primary hematopoietic stem cells short term culture	blood
12	chr15:93386600-93389400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr15:93386600-93389800	Enhancers	Primary monocytes fromperipheralblood	blood
14	chr15:93386600-93390600	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
15	chr15:93386800-93393800	Enhancers	Primary B cells from peripheral blood	blood
16	chr15:93387400-93391600	Weak transcription	Spleen	Spleen
17	chr15:93387800-93389400	Enhancers	Stomach Mucosa	stomach
18	chr15:93388000-93389000	Flanking Active TSS	Primary T cells from cord blood	blood
19	chr15:93388000-93389000	Flanking Active TSS	Rectal Mucosa Donor 29	rectum
20	chr15:93388000-93389000	Bivalent Enhancer	HUVEC	blood vessel
21	chr15:93388000-93389400	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr15:93388000-93389400	Enhancers	Duodenum Smooth Muscle	Duodenum
23	chr15:93388000-93389400	Enhancers	Fetal Intestine Small	intestine
24	chr15:93388000-93389400	Flanking Active TSS	Monocytes-CD14+_RO01746	blood
25	chr15:93388000-93389600	Enhancers	Breast Myoepithelial Primary Cells	Breast
26	chr15:93388000-93389600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
27	chr15:93388000-93390000	Enhancers	Hela-S3	cervix
28	chr15:93388000-93390200	Enhancers	Muscle Satellite Cultured Cells	--
29	chr15:93388000-93393000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr15:93388200-93389000	Flanking Active TSS	Primary T helper cells PMA-I stimulated	--
31	chr15:93388200-93389000	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
32	chr15:93388200-93389000	Enhancers	Fetal Lung	lung
33	chr15:93388200-93390400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
34	chr15:93388200-93392600	Enhancers	NHDF-Ad	bronchial
35	chr15:93388400-93389000	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr15:93388400-93389000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr15:93388400-93389600	Enhancers	Duodenum Mucosa	Duodenum
38	chr15:93388400-93390400	Weak transcription	Fetal Intestine Large	intestine
39	chr15:93388400-93390400	Enhancers	Osteobl	bone
40	chr15:93388400-93390600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
41	chr15:93388600-93389000	Weak transcription	Sigmoid Colon	Sigmoid Colon
42	chr15:93388600-93389200	Weak transcription	Small Intestine	intestine
43	chr15:93388600-93389600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
44	chr15:93388600-93389600	Enhancers	Rectal Mucosa Donor 31	rectum
45	chr15:93388600-93389800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
46	chr15:93388600-93390600	Enhancers	HepG2	liver
47	chr15:93388600-93391200	Weak transcription	HSMM	muscle
48	chr15:93388600-93392200	Enhancers	Primary T cells fromperipheralblood	blood
49	chr15:93388600-93393200	Enhancers	Primary neutrophils fromperipheralblood	blood
50	chr15:93388600-93393600	Enhancers	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links