Variant report

Variant	rs1379179
Chromosome Location	chr7:50191520-50191521
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 90 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:86)

rs_ID	r²[population]
rs10225094	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs10229515	1.00[CHB][hapmap]
rs10233698	0.82[CHB][hapmap]
rs10234768	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10236637	1.00[CHB][hapmap]
rs10245556	1.00[CHB][hapmap];1.00[JPT][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1032990	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs11185597	0.82[CHB][hapmap]
rs11185598	0.82[CHB][hapmap]
rs11970999	0.82[CHB][hapmap]
rs11974866	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12540153	0.82[CHB][hapmap]
rs12672757	0.82[CHB][hapmap]
rs12674442	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1351688	0.82[CHB][hapmap]
rs1351691	0.82[CHB][hapmap]
rs1355037	0.82[CHB][hapmap]
rs1379174	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1379175	0.80[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1379180	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1379181	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1396277	1.00[CHB][hapmap]
rs1456905	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1456907	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1466292	0.83[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1472886	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1476240	0.82[CHB][hapmap]
rs1476241	0.82[CHB][hapmap]
rs1483076	0.82[CHB][hapmap]
rs1483077	0.82[CHB][hapmap]
rs1483083	0.82[CHB][hapmap]
rs1483084	0.82[CHB][hapmap]
rs1567278	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1601032	0.82[CHB][hapmap]
rs1905271	1.00[CHB][hapmap]
rs1905272	0.82[CHB][hapmap]
rs1911751	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1911754	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1911755	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1911756	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1911767	0.82[CHB][hapmap]
rs2046299	0.82[CHB][hapmap]
rs2128658	0.82[CHB][hapmap]
rs2128664	0.82[CHB][hapmap]
rs2168591	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2168592	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2202772	1.00[CHB][hapmap]
rs2221656	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2221657	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs2247628	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2365791	0.82[CHB][hapmap]
rs2366023	0.82[CHB][hapmap]
rs2366025	0.87[ASN][1000 genomes]
rs2366028	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs2886464	0.82[CHB][hapmap]
rs3757391	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3807323	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs3807324	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs3823541	1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs4244228	0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917005	1.00[CHB][hapmap]
rs4917010	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4917103	0.82[CHB][hapmap]
rs4917111	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4917112	0.93[ASN][1000 genomes]
rs6583407	1.00[CHB][hapmap]
rs6583423	0.93[ASN][1000 genomes]
rs6583431	0.82[CHB][hapmap]
rs6583432	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6948934	0.82[CHB][hapmap]
rs6953525	0.82[CHB][hapmap]
rs6956098	0.93[ASN][1000 genomes]
rs6969018	1.00[CHB][hapmap]
rs6973828	0.93[AMR][1000 genomes];0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6979166	0.82[CHB][hapmap]
rs764250	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7778784	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7785151	0.82[CHB][hapmap]
rs7788033	0.82[CHB][hapmap]
rs7788998	1.00[CHB][hapmap]
rs7792222	0.82[CHB][hapmap]
rs7793883	1.00[CHB][hapmap]
rs897695	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs897696	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs959678	0.82[CHB][hapmap]
rs988393	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv464444	chr7:49671882-50454736	Enhancers Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv606897	chr7:49671883-50454736	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv498090	chr7:49708644-50427714	Enhancers Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
4	nsv1020869	chr7:49712860-50457544	Enhancers Active TSS Flanking Active TSS Strong transcription Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:50173600-50192800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:50182600-50193200	Enhancers	Primary B cells from cord blood	blood
3	chr7:50184400-50193400	Enhancers	Primary B cells from peripheral blood	blood
4	chr7:50185400-50193400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
5	chr7:50185400-50193600	Enhancers	Primary hematopoietic stem cells	blood
6	chr7:50186600-50195400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
7	chr7:50188000-50192000	Enhancers	Primary T helper cells PMA-I stimulated	--
8	chr7:50189200-50195200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr7:50189200-50195400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr7:50189200-50203400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr7:50189600-50195200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
12	chr7:50189600-50195400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
13	chr7:50189600-50195400	Weak transcription	Dnd41	blood
14	chr7:50189800-50192600	Weak transcription	GM12878-XiMat	blood
15	chr7:50189800-50195200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
16	chr7:50189800-50195400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr7:50190000-50195200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
18	chr7:50190200-50195200	Weak transcription	Primary T helper cells fromperipheralblood	blood
19	chr7:50190400-50191600	Weak transcription	Fetal Thymus	thymus
20	chr7:50190400-50192000	Weak transcription	Thymus	Thymus
21	chr7:50190800-50195200	Weak transcription	Primary T cells from cord blood	blood
22	chr7:50191000-50194000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
23	chr7:50191200-50192600	Weak transcription	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links