Variant report

Variant	rs802779
Chromosome Location	chr3:59993222-59993223
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:26)

rs_ID	r²[population]
rs11707783	0.87[CEU][hapmap]
rs11711589	0.87[CEU][hapmap]
rs1474308	1.00[ASN][1000 genomes]
rs17061494	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs17061699	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs1879996	0.87[CEU][hapmap]
rs212015	0.87[CEU][hapmap]
rs212017	0.83[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.88[TSI][hapmap];0.89[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212018	0.93[CEU][hapmap];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs212030	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs212031	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs212033	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs212034	0.87[CEU][hapmap]
rs2630167	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2687895	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs2736802	0.87[CEU][hapmap]
rs3772475	0.87[CEU][hapmap]
rs6446099	1.00[CHB][hapmap]
rs7610652	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs7627676	1.00[CEU][hapmap]
rs7629424	0.85[CEU][hapmap]
rs802777	0.84[ASW][hapmap];0.93[CEU][hapmap];0.88[TSI][hapmap];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs802778	0.84[ASW][hapmap]
rs9819930	0.93[CEU][hapmap]
rs9820451	1.00[CHB][hapmap];1.00[ASN][1000 genomes]
rs9881070	0.86[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv428085	chr3:59782509-60070116	Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Active TSS Genic enhancers ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
2	nsv1014983	chr3:59884024-60558331	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
3	nsv590387	chr3:59890976-60481459	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
4	nsv876838	chr3:59952152-59999690	Enhancers Flanking Active TSS Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv590388	chr3:59957252-60018326	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv590389	chr3:59981525-59998389	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3'	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59987200-59994000	Weak transcription	Thymus	Thymus
2	chr3:59989200-59993600	Enhancers	Primary T helper naive cells from peripheral blood	blood
3	chr3:59989600-59993800	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr3:59990600-59995200	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr3:59990800-59995200	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr3:59991200-59995800	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
7	chr3:59991800-59993600	Weak transcription	Fetal Thymus	thymus
8	chr3:59992200-59995600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
9	chr3:59992600-59994400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
10	chr3:59992600-59996200	Enhancers	Primary hematopoietic stem cells short term culture	blood
11	chr3:59992800-59994400	Enhancers	Primary hematopoietic stem cells	blood
12	chr3:59992800-59994800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr3:59992800-59996600	Flanking Active TSS	Primary T helper naive cells fromperipheralblood	blood
14	chr3:59993000-59995600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr3:59993000-59997200	Flanking Active TSS	Primary T cells from cord blood	blood
16	chr3:59993200-59993600	Enhancers	Primary T helper cells PMA-I stimulated	--
17	chr3:59993200-59994200	Strong transcription	Dnd41	blood
18	chr3:59993200-59995600	Enhancers	Primary T cells fromperipheralblood	blood
19	chr3:59993200-59995600	Enhancers	Primary T regulatory cells fromperipheralblood	blood

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