Variant report

Variant	rs4679608
Chromosome Location	chr3:59763829-59763830
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11130731	0.88[EUR][1000 genomes]
rs11707726	0.86[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs12486936	0.89[CEU][hapmap];0.88[EUR][1000 genomes]
rs12486972	0.88[CEU][hapmap];0.88[EUR][1000 genomes]
rs13092167	0.80[CEU][hapmap]
rs1385715	0.80[CEU][hapmap]
rs1485717	0.96[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs1485734	0.95[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs17061197	0.84[CEU][hapmap]
rs17361653	0.91[CHB][hapmap];0.95[JPT][hapmap];0.90[ASN][1000 genomes]
rs34787563	0.92[ASN][1000 genomes]
rs35595242	0.89[ASN][1000 genomes]
rs4679505	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs492836	1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs517644	0.95[CHB][hapmap];0.95[JPT][hapmap];0.97[ASN][1000 genomes]
rs550626	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs55799227	0.89[ASN][1000 genomes]
rs56377327	0.89[ASN][1000 genomes]
rs575614	0.91[CHB][hapmap];0.95[JPT][hapmap];0.96[ASN][1000 genomes]
rs659193	0.81[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7616694	1.00[CHB][hapmap];0.95[JPT][hapmap];0.89[ASN][1000 genomes]
rs780365	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs780370	0.95[CHB][hapmap];0.95[JPT][hapmap];0.94[ASN][1000 genomes]
rs810525	0.94[ASN][1000 genomes]
rs972795	0.85[CEU][hapmap];0.95[CHB][hapmap];0.95[JPT][hapmap];0.85[AMR][1000 genomes];0.86[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs9813727	0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9817691	0.88[CEU][hapmap];0.95[CHB][hapmap];0.96[JPT][hapmap];0.83[EUR][1000 genomes];0.94[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1014601	chr3:59666609-59888166	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	1 gene(s)	inside rSNPs	diseases
2	nsv1003387	chr3:59756364-59831340	Enhancers Strong transcription Weak transcription Bivalent Enhancer Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv460562	chr3:59760118-59826778	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv590381	chr3:59760118-59826778	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv590382	chr3:59763809-59793062	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS	n/a	n/a	inside rSNPs	diseases

No data

Chromatin state (count:18 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59759400-59765200	Enhancers	Primary hematopoietic stem cells short term culture	blood
2	chr3:59760400-59776000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
3	chr3:59761000-59764200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
4	chr3:59761000-59772400	Weak transcription	Fetal Brain Male	brain
5	chr3:59761200-59768200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr3:59761800-59764800	Enhancers	Primary hematopoietic stem cells	blood
7	chr3:59761800-59765200	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
8	chr3:59762000-59770000	Weak transcription	Fetal Thymus	thymus
9	chr3:59762400-59764200	Enhancers	Primary T cells from cord blood	blood
10	chr3:59762400-59769600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
11	chr3:59762800-59764600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
12	chr3:59763000-59764400	Enhancers	Primary B cells from peripheral blood	blood
13	chr3:59763200-59764200	Enhancers	GM12878-XiMat	blood
14	chr3:59763400-59769400	Weak transcription	Primary T helper cells PMA-I stimulated	--
15	chr3:59763600-59764000	Enhancers	Primary T helper naive cells from peripheral blood	blood
16	chr3:59763600-59765400	Weak transcription	Dnd41	blood
17	chr3:59763600-59768800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr3:59763800-59764600	Enhancers	Primary T helper cells fromperipheralblood	blood

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