Variant report

Variant	rs889871
Chromosome Location	chr15:34165543-34165544
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs2243764	1.00[AMR][1000 genomes]
rs2257058	1.00[AMR][1000 genomes]
rs2632074	1.00[AMR][1000 genomes]
rs2632089	1.00[AMR][1000 genomes]
rs2684938	1.00[AMR][1000 genomes]
rs2684942	1.00[AMR][1000 genomes]
rs2684948	1.00[AMR][1000 genomes]
rs2684949	1.00[AMR][1000 genomes]
rs2684957	1.00[AMR][1000 genomes]
rs2702275	1.00[AMR][1000 genomes]
rs4780200	1.00[AMR][1000 genomes]
rs4780201	1.00[AMR][1000 genomes]
rs4780202	1.00[AMR][1000 genomes]
rs527470	1.00[AMR][1000 genomes]
rs537920	1.00[AMR][1000 genomes]
rs591999	1.00[AMR][1000 genomes]
rs681873	1.00[AMR][1000 genomes]
rs8041929	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs891342	1.00[AMR][1000 genomes]
rs919470	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1043046	chr15:33714908-34321330	Enhancers Flanking Active TSS Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv456789	chr15:34034421-34426618	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
3	nsv568920	chr15:34034421-34426618	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
4	nsv471235	chr15:34035529-34421951	Strong transcription Weak transcription Enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	29 gene(s)	inside rSNPs	diseases
5	nsv568921	chr15:34046635-34247622	Enhancers Weak transcription Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	4 gene(s)	inside rSNPs	diseases
6	nsv1044844	chr15:34065524-34296829	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:36 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:34142400-34168600	Weak transcription	Esophagus	oesophagus
2	chr15:34149400-34165800	Weak transcription	Fetal Intestine Small	intestine
3	chr15:34150800-34167400	Weak transcription	Duodenum Mucosa	Duodenum
4	chr15:34152400-34167600	Weak transcription	Rectal Mucosa Donor 31	rectum
5	chr15:34153400-34166400	Weak transcription	HMEC	breast
6	chr15:34153600-34166000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr15:34153600-34166000	Weak transcription	NHEK	skin
8	chr15:34155600-34169600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr15:34158600-34168800	Weak transcription	Gastric	stomach
10	chr15:34158600-34172600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr15:34158800-34167200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
12	chr15:34158800-34168000	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr15:34158800-34169200	Weak transcription	Fetal Intestine Large	intestine
14	chr15:34159000-34166200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
15	chr15:34159000-34172600	Weak transcription	Aorta	Aorta
16	chr15:34159600-34168400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:34159600-34168600	Weak transcription	Sigmoid Colon	Sigmoid Colon
18	chr15:34159600-34169600	Weak transcription	Liver	Liver
19	chr15:34159800-34166000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:34159800-34166600	Weak transcription	Adipose Nuclei	Adipose
21	chr15:34159800-34168200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
22	chr15:34159800-34169400	Weak transcription	Primary hematopoietic stem cells	blood
23	chr15:34160000-34168800	Weak transcription	Ovary	ovary
24	chr15:34160000-34199400	Weak transcription	Left Ventricle	heart
25	chr15:34160400-34167400	Weak transcription	Primary T cells from cord blood	blood
26	chr15:34160400-34168000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr15:34164400-34186400	Weak transcription	Right Atrium	heart
28	chr15:34164600-34166800	Enhancers	Placenta	Placenta
29	chr15:34164600-34167000	Weak transcription	Fetal Stomach	stomach
30	chr15:34164600-34169600	Weak transcription	HSMMtube	muscle
31	chr15:34164600-34173200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
32	chr15:34164800-34168000	Weak transcription	Brain Inferior Temporal Lobe	brain
33	chr15:34164800-34168200	Weak transcription	Lung	lung
34	chr15:34165200-34167200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
35	chr15:34165200-34172400	Weak transcription	H1 Cell Line	embryonic stem cell
36	chr15:34165200-34172400	Weak transcription	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links