Variant report

Variant	rs17105949
Chromosome Location	chr14:78010157-78010158
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr14:78009315..78010899-chr14:78010938..78012880,2	MCF-7	breast:

Extended variants
information (count: 37 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs10135955	0.89[CHB][hapmap];0.84[JPT][hapmap]
rs10147810	0.82[CHB][hapmap]
rs12101129	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs12586959	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12588462	0.84[CHB][hapmap]
rs12589478	0.94[CHB][hapmap];0.83[CHD][hapmap];0.94[JPT][hapmap];0.90[ASN][1000 genomes]
rs17105930	0.85[ASW][hapmap]
rs17105954	0.92[ASW][hapmap];0.83[LWK][hapmap];0.88[YRI][hapmap];0.85[AFR][1000 genomes]
rs2284230	0.94[CHB][hapmap];0.92[CHD][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs2299911	0.88[CHB][hapmap];0.92[CHD][hapmap];0.94[JPT][hapmap];0.92[ASN][1000 genomes]
rs2299912	0.94[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs2299913	0.94[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs2299914	0.95[ASN][1000 genomes]
rs2299915	1.00[CHB][hapmap];0.94[JPT][hapmap];0.97[ASN][1000 genomes]
rs28482839	0.96[ASN][1000 genomes]
rs28608714	0.85[AFR][1000 genomes]
rs28628767	0.88[AFR][1000 genomes]
rs28654332	0.95[ASN][1000 genomes]
rs28676801	0.92[ASN][1000 genomes]
rs28714070	0.83[AFR][1000 genomes]
rs28716286	0.92[ASN][1000 genomes]
rs34359219	0.96[ASN][1000 genomes]
rs55949800	0.97[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56138064	0.87[AFR][1000 genomes]
rs56192928	0.84[AFR][1000 genomes]
rs56208416	0.88[ASN][1000 genomes]
rs61990763	0.96[ASN][1000 genomes]
rs61992441	0.96[ASN][1000 genomes]
rs7159683	0.85[AFR][1000 genomes]
rs72683251	0.81[ASN][1000 genomes]
rs73303254	0.88[AFR][1000 genomes]
rs8018049	0.86[AFR][1000 genomes]
rs9323647	0.83[AFR][1000 genomes]
rs9806055	0.85[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832835	chr14:77906706-78095207	Weak transcription Enhancers Strong transcription Genic enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv1053810	chr14:77987871-78148320	Genic enhancers Active TSS Weak transcription Enhancers Strong transcription Bivalent/Poised TSS Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
3	nsv1051554	chr14:78004196-78122980	Enhancers Active TSS Weak transcription Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17105949	GSTZ1	cis	parietal	SCAN

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:77970200-78047200	Weak transcription	Fetal Heart	heart
2	chr14:77972000-78018000	Weak transcription	Hela-S3	cervix
3	chr14:77978000-78013400	Weak transcription	NHDF-Ad	bronchial
4	chr14:77978600-78014600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr14:77978800-78042200	Weak transcription	Fetal Brain Male	brain
6	chr14:77979000-78013800	Weak transcription	Pancreas	Pancrea
7	chr14:77985200-78014800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
8	chr14:77985400-78015000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr14:77986200-78013800	Weak transcription	Esophagus	oesophagus
10	chr14:77987400-78021000	Weak transcription	Placenta Amnion	Placenta Amnion
11	chr14:77987600-78010200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
12	chr14:77987600-78010600	Weak transcription	Left Ventricle	heart
13	chr14:77987800-78013400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
14	chr14:77987800-78013600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr14:77987800-78013800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
16	chr14:77987800-78014600	Weak transcription	H1 Cell Line	embryonic stem cell
17	chr14:77987800-78014600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
18	chr14:77987800-78014800	Weak transcription	Stomach Smooth Muscle	stomach
19	chr14:77987800-78015000	Weak transcription	Thymus	Thymus
20	chr14:77987800-78015600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
21	chr14:77987800-78060000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr14:77988000-78010200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
23	chr14:77988000-78010600	Weak transcription	HUES48 Cell Line	embryonic stem cell
24	chr14:77988000-78010800	Weak transcription	Dnd41	blood
25	chr14:77988000-78013800	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr14:77988000-78013800	Weak transcription	Colonic Mucosa	Colon
27	chr14:77988000-78014600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr14:77988000-78014800	Weak transcription	HMEC	breast
29	chr14:77988000-78015200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
30	chr14:77988000-78015600	Weak transcription	Right Ventricle	heart
31	chr14:77988400-78013000	Weak transcription	Small Intestine	intestine
32	chr14:77988400-78013800	Weak transcription	Fetal Muscle Trunk	muscle
33	chr14:77988400-78029400	Weak transcription	Skeletal Muscle Male	skeletal muscle
34	chr14:77988600-78013400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
35	chr14:77990000-78010600	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr14:77990400-78010800	Weak transcription	Primary T helper cells PMA-I stimulated	--
37	chr14:77997800-78018800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
38	chr14:78001400-78014000	Weak transcription	HUES6 Cell Line	embryonic stem cell
39	chr14:78001600-78010400	Weak transcription	Fetal Intestine Large	intestine
40	chr14:78001800-78014000	Weak transcription	Fetal Intestine Small	intestine
41	chr14:78002000-78010400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
42	chr14:78002000-78010600	Weak transcription	Sigmoid Colon	Sigmoid Colon
43	chr14:78002000-78011200	Weak transcription	Liver	Liver
44	chr14:78002000-78014800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
45	chr14:78002000-78015000	Weak transcription	Lung	lung
46	chr14:78002200-78014400	Weak transcription	A549	lung
47	chr14:78002200-78020800	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
48	chr14:78002400-78010600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
49	chr14:78002400-78013600	Weak transcription	NHEK	skin
50	chr14:78004000-78014800	Weak transcription	Ovary	ovary

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links