Variant report

Variant	rs10193201
Chromosome Location	chr2:173375915-173375916
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 31 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs10460364	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs11898288	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs13012170	0.85[JPT][hapmap]
rs1319059	0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17664	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[YRI][hapmap];0.81[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1920979	0.95[CEU][hapmap]
rs2357634	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2357635	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2737086	0.83[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs3108778	0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35968313	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs3828343	0.83[CEU][hapmap]
rs4246629	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4972834	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs4972835	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4972840	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4972841	0.87[CEU][hapmap];0.83[EUR][1000 genomes]
rs5015856	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs55978548	0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62167825	0.95[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6433362	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6710725	0.87[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6715425	0.85[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6723030	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6749369	0.97[AMR][1000 genomes];0.94[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6759316	0.87[CEU][hapmap]
rs6759557	0.87[CEU][hapmap]
rs7560501	0.85[EUR][1000 genomes]
rs7570417	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7575064	0.81[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]

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	nsv533927	chr2:173161637-173796894	Active TSS Enhancers Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Strong transcription Weak transcription Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	44 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:54 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:173347800-173376200	Weak transcription	Fetal Heart	heart
2	chr2:173356400-173379200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr2:173356800-173376000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
4	chr2:173356800-173376200	Weak transcription	Brain Substantia Nigra	brain
5	chr2:173357000-173376000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr2:173357000-173376000	Weak transcription	Aorta	Aorta
7	chr2:173357200-173376600	Weak transcription	Right Ventricle	heart
8	chr2:173357600-173376200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr2:173358000-173376200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr2:173367400-173376000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
11	chr2:173369600-173376000	Weak transcription	H1 Cell Line	embryonic stem cell
12	chr2:173369600-173376000	Weak transcription	H9 Cell Line	embryonic stem cell
13	chr2:173369600-173376000	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr2:173369600-173376000	Weak transcription	Esophagus	oesophagus
15	chr2:173369600-173376000	Weak transcription	HUVEC	blood vessel
16	chr2:173369800-173376600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
17	chr2:173372400-173377000	Weak transcription	Thymus	Thymus
18	chr2:173372600-173379600	Enhancers	Primary B cells from peripheral blood	blood
19	chr2:173373200-173376200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
20	chr2:173373200-173376200	Weak transcription	NHEK	skin
21	chr2:173373200-173376400	Weak transcription	Fetal Thymus	thymus
22	chr2:173373400-173376000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr2:173373400-173376000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
24	chr2:173373400-173376400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
25	chr2:173373600-173376400	Weak transcription	Rectal Mucosa Donor 29	rectum
26	chr2:173373800-173376000	Enhancers	Primary hematopoietic stem cells short term culture	blood
27	chr2:173374200-173376000	Enhancers	Primary hematopoietic stem cells	blood
28	chr2:173374200-173376000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
29	chr2:173374200-173376400	Enhancers	Primary T cells fromperipheralblood	blood
30	chr2:173374200-173376600	Enhancers	Primary T helper cells fromperipheralblood	blood
31	chr2:173374800-173376000	Enhancers	Primary neutrophils fromperipheralblood	blood
32	chr2:173374800-173376600	Strong transcription	HSMMtube	muscle
33	chr2:173375000-173376400	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr2:173375000-173380800	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr2:173375200-173376400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
36	chr2:173375200-173377600	ZNF genes & repeats	GM12878-XiMat	blood
37	chr2:173375400-173376600	Enhancers	Primary T killer memory cells from peripheral blood	blood
38	chr2:173375400-173376800	ZNF genes & repeats	ES-UCSF4 Cell Line	embryonic stem cell
39	chr2:173375400-173378400	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
40	chr2:173375400-173378800	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
41	chr2:173375400-173379200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr2:173375600-173376000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
43	chr2:173375600-173376000	Enhancers	Monocytes-CD14+_RO01746	blood
44	chr2:173375600-173376200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
45	chr2:173375600-173376400	Enhancers	Primary T helper cells PMA-I stimulated	--
46	chr2:173375600-173376600	Enhancers	Primary T helper naive cells fromperipheralblood	blood
47	chr2:173375600-173376600	ZNF genes & repeats	HSMM	muscle
48	chr2:173375600-173378400	ZNF genes & repeats	Liver	Liver
49	chr2:173375800-173376000	Weak transcription	Duodenum Mucosa	Duodenum
50	chr2:173375800-173376200	Enhancers	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links