Variant report

Variant	rs10213849
Chromosome Location	chr5:75738116-75738117
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 37 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10043040	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10044351	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10044370	0.96[CEU][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10044373	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10068074	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10068404	0.86[AMR][1000 genomes];0.93[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10068651	1.00[CEU][hapmap];1.00[CHB][hapmap];0.94[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10070688	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10072221	0.96[CEU][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10073228	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10073282	0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10073382	0.96[CEU][hapmap];0.80[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10073448	0.83[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10077372	0.96[CEU][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10079393	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11740038	0.89[CEU][hapmap]
rs11741153	0.81[JPT][hapmap]
rs11743541	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11749318	0.96[CEU][hapmap];0.84[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12523532	0.96[CEU][hapmap];0.80[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs13175420	0.82[EUR][1000 genomes]
rs3886043	0.89[CEU][hapmap]
rs4130148	0.85[CHB][hapmap];0.81[JPT][hapmap]
rs4296785	0.80[YRI][hapmap]
rs4615280	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs59428516	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs60570368	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs6453217	0.92[CEU][hapmap]
rs6865628	0.96[CEU][hapmap];0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6887962	0.96[CEU][hapmap];0.80[CHB][hapmap];0.94[JPT][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7706078	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7706926	0.89[CEU][hapmap]
rs7717110	0.82[JPT][hapmap]
rs7718320	0.80[CHB][hapmap];0.81[JPT][hapmap]
rs7732454	0.82[JPT][hapmap]

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	nsv870415	chr5:75526088-75738412	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv882206	chr5:75676658-75746813	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:45 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr5:75703600-75747000	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr5:75722800-75767800	Weak transcription	Ovary	ovary
3	chr5:75724200-75738200	Weak transcription	Pancreas	Pancrea
4	chr5:75724200-75748400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
5	chr5:75726200-75744600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
6	chr5:75729000-75738200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
7	chr5:75729400-75751600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr5:75729800-75740800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
9	chr5:75732000-75745800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr5:75733000-75741000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
11	chr5:75734400-75741000	Weak transcription	Primary T helper cells fromperipheralblood	blood
12	chr5:75734800-75745600	Weak transcription	Thymus	Thymus
13	chr5:75734800-75745800	Weak transcription	Primary neutrophils fromperipheralblood	blood
14	chr5:75735800-75743000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
15	chr5:75735800-75745000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr5:75736000-75741000	Weak transcription	Primary B cells from cord blood	blood
17	chr5:75736200-75740800	Weak transcription	Primary hematopoietic stem cells	blood
18	chr5:75736200-75741800	Weak transcription	Primary T cells from cord blood	blood
19	chr5:75736400-75747000	Weak transcription	GM12878-XiMat	blood
20	chr5:75736600-75739200	Genic enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
21	chr5:75736600-75740200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
22	chr5:75736600-75741000	Strong transcription	Primary hematopoietic stem cells short term culture	blood
23	chr5:75736600-75743600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
24	chr5:75736800-75738800	Weak transcription	Fetal Stomach	stomach
25	chr5:75736800-75742400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
26	chr5:75737000-75740000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
27	chr5:75737000-75744800	Strong transcription	Monocytes-CD14+_RO01746	blood
28	chr5:75737000-75745200	Weak transcription	Rectal Mucosa Donor 31	rectum
29	chr5:75737400-75738200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
30	chr5:75737400-75741600	Weak transcription	Primary T helper cells PMA-I stimulated	--
31	chr5:75737600-75738400	Enhancers	ES-I3 Cell Line	embryonic stem cell
32	chr5:75737600-75738400	Strong transcription	Primary monocytes fromperipheralblood	blood
33	chr5:75737600-75742600	Weak transcription	HUES64 Cell Line	embryonic stem cell
34	chr5:75737800-75738200	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr5:75737800-75738600	Enhancers	Stomach Mucosa	stomach
36	chr5:75737800-75741600	Weak transcription	Placenta	Placenta
37	chr5:75737800-75743400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
38	chr5:75737800-75743800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
39	chr5:75737800-75744800	Weak transcription	Fetal Thymus	thymus
40	chr5:75737800-75747000	Weak transcription	Gastric	stomach
41	chr5:75737800-75751400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr5:75738000-75739000	Weak transcription	Liver	Liver
43	chr5:75738000-75740400	Weak transcription	Primary T cells fromperipheralblood	blood
44	chr5:75738000-75740800	Weak transcription	HepG2	liver
45	chr5:75738000-75744800	Weak transcription	Sigmoid Colon	Sigmoid Colon

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links