Variant report

Variant	rs11158880
Chromosome Location	chr14:71186642-71186643
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 28 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10129529	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10134929	0.95[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap]
rs10139774	0.81[CEU][hapmap];1.00[CHB][hapmap];0.84[CHD][hapmap];0.83[GIH][hapmap];1.00[JPT][hapmap];0.86[MEX][hapmap];0.94[ASN][1000 genomes]
rs11620710	0.87[CHB][hapmap]
rs11621269	0.82[CHB][hapmap]
rs11622867	0.82[CHB][hapmap]
rs11626707	0.82[CHB][hapmap]
rs11851046	0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12433469	0.87[CHB][hapmap];0.80[CHD][hapmap]
rs12883244	0.87[CHB][hapmap];0.80[CHD][hapmap]
rs2158528	0.81[CHB][hapmap]
rs2332457	0.87[CHB][hapmap];0.84[CHD][hapmap]
rs4899371	0.83[CHB][hapmap]
rs4902847	0.85[CHB][hapmap]
rs4902848	0.87[CHB][hapmap];0.80[CHD][hapmap]
rs4902855	0.82[CHB][hapmap]
rs6573976	1.00[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs7144832	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7151405	0.87[CHB][hapmap]
rs7151957	0.94[ASN][1000 genomes]
rs7153775	0.83[CHB][hapmap];0.82[CHD][hapmap]
rs7154907	0.87[CHB][hapmap]
rs7160912	0.87[CHB][hapmap];0.80[CHD][hapmap]
rs8005459	0.87[CHB][hapmap]
rs8006539	0.95[CHB][hapmap];0.91[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.90[MEX][hapmap];0.83[TSI][hapmap];0.87[AMR][1000 genomes];0.95[ASN][1000 genomes]
rs8022269	0.83[CHB][hapmap]
rs886600	0.87[CHB][hapmap];0.84[CHD][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1039460	chr14:71176898-71371125	Weak transcription Enhancers Bivalent/Poised TSS Active TSS Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11158880	NCRNA00238	cis	parietal	SCAN

Chromatin state (count:42 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:71177200-71195600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr14:71178600-71189800	Weak transcription	Fetal Brain Female	brain
3	chr14:71179800-71193200	Weak transcription	Right Atrium	heart
4	chr14:71180600-71193800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr14:71180600-71196800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
6	chr14:71180600-71196800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
7	chr14:71180800-71193600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
8	chr14:71180800-71196000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr14:71180800-71200800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
10	chr14:71181000-71188600	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr14:71181200-71188400	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr14:71181200-71195800	Weak transcription	Pancreatic Islets	Pancreatic Islet
13	chr14:71182400-71188200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
14	chr14:71183200-71190200	Enhancers	Fetal Intestine Small	intestine
15	chr14:71183200-71192200	Enhancers	Fetal Intestine Large	intestine
16	chr14:71183800-71189600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
17	chr14:71184000-71188200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
18	chr14:71184400-71187800	Weak transcription	Liver	Liver
19	chr14:71184400-71194400	Weak transcription	HUES6 Cell Line	embryonic stem cell
20	chr14:71185400-71198800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
21	chr14:71185800-71188000	Weak transcription	HepG2	liver
22	chr14:71185800-71196400	Weak transcription	Colonic Mucosa	Colon
23	chr14:71185800-71196600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr14:71185800-71198600	Weak transcription	Rectal Mucosa Donor 31	rectum
25	chr14:71185800-71219200	Weak transcription	Stomach Mucosa	stomach
26	chr14:71186000-71187800	Weak transcription	HMEC	breast
27	chr14:71186000-71188200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
28	chr14:71186000-71188200	Weak transcription	NHEK	skin
29	chr14:71186000-71188400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr14:71186000-71188400	Weak transcription	A549	lung
31	chr14:71186000-71188600	Weak transcription	HSMMtube	muscle
32	chr14:71186000-71190000	Weak transcription	Placenta	Placenta
33	chr14:71186000-71190600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr14:71186000-71190600	Weak transcription	Placenta Amnion	Placenta Amnion
35	chr14:71186000-71195400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
36	chr14:71186000-71195600	Weak transcription	Pancreas	Pancrea
37	chr14:71186000-71196600	Weak transcription	Gastric	stomach
38	chr14:71186000-71196600	Weak transcription	Lung	lung
39	chr14:71186000-71221600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
40	chr14:71186000-71221600	Weak transcription	Hela-S3	cervix
41	chr14:71186200-71190000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
42	chr14:71186600-71189800	Weak transcription	Esophagus	oesophagus

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links