Variant report

Variant	rs34417906
Chromosome Location	chr15:75087009-75087010
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr15:75086144-75088068	GM12892	blood:	n/a	n/a
2	FOS	chr15:75086947-75087094	MCF10A-Er-Src	breast:	n/a	n/a
3	POLR2A	chr15:75086468-75087213	GM12892	blood:	n/a	n/a
4	POLR2A	chr15:75083936-75087476	GM12878	blood:	n/a	n/a
5	FOS	chr15:75086928-75087086	MCF10A-Er-Src	breast:	n/a	n/a
6	POLR2A	chr15:75086782-75087403	GM12878	blood:	n/a	n/a
7	POLR2A	chr15:75086675-75087687	GM12892	blood:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr15:75085754..75088425-chr15:75092010..75094083,2	MCF-7	breast:
2	chr15:75080218..75087203-chr15:75106250..75113071,13	MCF-7	breast:
3	chr15:75086825..75088455-chr15:75228653..75231420,2	K562	blood:

Variant related genes	Relation type
CSK	TF binding region
ENSG00000178741	Chromatin interaction
ENSG00000103653	Chromatin interaction
ENSG00000261606	Chromatin interaction
ENSG00000140506	Chromatin interaction

Extended variants
information (count: 3 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:1)

rs_ID	r²[population]
rs34552461	0.81[AFR][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	nsv904380	chr15:74869438-75142761	Flanking Active TSS Weak transcription Active TSS Enhancers Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	69 gene(s)	inside rSNPs	diseases
2	nsv833055	chr15:74988344-75166288	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75077800-75092000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr15:75079400-75093800	Weak transcription	Aorta	Aorta
3	chr15:75080800-75088600	Enhancers	Stomach Mucosa	stomach
4	chr15:75081200-75091400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr15:75081800-75087600	Enhancers	Brain Substantia Nigra	brain
6	chr15:75081800-75092000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
7	chr15:75081800-75092000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr15:75082200-75092200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
9	chr15:75082400-75088000	Genic enhancers	Fetal Intestine Small	intestine
10	chr15:75082400-75098400	Weak transcription	Fetal Kidney	kidney
11	chr15:75082600-75088400	Genic enhancers	Fetal Thymus	thymus
12	chr15:75082600-75090400	Weak transcription	HepG2	liver
13	chr15:75082600-75093200	Weak transcription	HUES64 Cell Line	embryonic stem cell
14	chr15:75083000-75087200	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
15	chr15:75083000-75089800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr15:75083000-75090400	Weak transcription	Dnd41	blood
17	chr15:75083000-75092000	Weak transcription	Hela-S3	cervix
18	chr15:75083000-75093000	Weak transcription	HUVEC	blood vessel
19	chr15:75083200-75090400	Weak transcription	Fetal Brain Female	brain
20	chr15:75083200-75091800	Weak transcription	A549	lung
21	chr15:75083200-75092400	Genic enhancers	Primary mononuclear cells fromperipheralblood	Blood
22	chr15:75083200-75093600	Genic enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr15:75083400-75090600	Weak transcription	Fetal Lung	lung
24	chr15:75083800-75087800	Enhancers	Brain Anterior Caudate	brain
25	chr15:75083800-75091600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
26	chr15:75084000-75087600	Genic enhancers	Primary monocytes fromperipheralblood	blood
27	chr15:75084200-75087600	Genic enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
28	chr15:75084200-75087800	Enhancers	Esophagus	oesophagus
29	chr15:75084400-75087400	Genic enhancers	Rectal Mucosa Donor 29	rectum
30	chr15:75084400-75088000	Genic enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
31	chr15:75084400-75093200	Genic enhancers	Primary B cells from cord blood	blood
32	chr15:75084400-75094600	Weak transcription	HSMMtube	muscle
33	chr15:75084600-75087600	Genic enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr15:75084800-75091000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr15:75085200-75087200	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
36	chr15:75085200-75090600	Weak transcription	Psoas Muscle	Psoas
37	chr15:75085200-75091400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
38	chr15:75085400-75087200	Weak transcription	Pancreas	Pancrea
39	chr15:75085400-75088200	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
40	chr15:75085600-75087400	Enhancers	HMEC	breast
41	chr15:75085600-75087800	Enhancers	Primary hematopoietic stem cells	blood
42	chr15:75085600-75091800	Weak transcription	NHDF-Ad	bronchial
43	chr15:75085800-75088400	Weak transcription	Fetal Muscle Leg	muscle
44	chr15:75085800-75088600	Enhancers	NHEK	skin
45	chr15:75085800-75089200	Enhancers	Duodenum Mucosa	Duodenum
46	chr15:75085800-75090200	Weak transcription	Stomach Smooth Muscle	stomach
47	chr15:75085800-75091800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
48	chr15:75085800-75091800	Weak transcription	Colon Smooth Muscle	Colon
49	chr15:75085800-75093200	Weak transcription	Ovary	ovary
50	chr15:75086000-75087200	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links