Variant report

Variant	rs56156676
Chromosome Location	chr3:59863109-59863110
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs1352021	1.00[EUR][1000 genomes]
rs17061320	1.00[EUR][1000 genomes]
rs17061328	1.00[EUR][1000 genomes]
rs55720112	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55853504	0.92[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs55903427	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs55912826	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56010440	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56052110	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56145583	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56192120	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56233685	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56242402	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56296352	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56378945	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs56414037	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs620113	1.00[EUR][1000 genomes]
rs73100603	0.83[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73100604	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100605	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100606	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100610	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100612	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100624	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100625	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100626	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100627	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100628	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100629	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100630	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100634	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100635	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs73100637	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100638	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100641	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs73100643	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100644	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100649	1.00[EUR][1000 genomes]
rs73100651	1.00[EUR][1000 genomes]
rs73100660	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73100663	1.00[EUR][1000 genomes]
rs73100666	1.00[EUR][1000 genomes]
rs73100668	1.00[EUR][1000 genomes]
rs73100670	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73100680	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73100688	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73100697	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73100701	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 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	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
3	nsv460564	chr3:59821071-59927727	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
4	nsv590384	chr3:59821071-59927727	Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Genic enhancers Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv460565	chr3:59842644-59877988	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv470616	chr3:59842644-59877988	Enhancers Weak transcription ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
7	nsv590385	chr3:59842644-59877988	Enhancers Strong transcription Weak transcription Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
8	nsv590386	chr3:59846067-59912377	Weak transcription Enhancers Strong transcription Genic enhancers Bivalent Enhancer Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:59850000-59864000	Weak transcription	Fetal Thymus	thymus
2	chr3:59854800-59867000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
3	chr3:59854800-59870800	Weak transcription	Primary T cells fromperipheralblood	blood
4	chr3:59855000-59865200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
5	chr3:59858000-59865800	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr3:59858200-59865000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr3:59859400-59864800	Weak transcription	Thymus	Thymus
8	chr3:59859400-59865000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr3:59859600-59863200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr3:59859800-59864200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr3:59861400-59864000	Weak transcription	Primary T cells from cord blood	blood
12	chr3:59862000-59865200	Enhancers	K562	blood
13	chr3:59862400-59864600	Weak transcription	Primary T helper cells fromperipheralblood	blood
14	chr3:59862600-59868800	Enhancers	Primary T helper cells PMA-I stimulated	--
15	chr3:59862800-59863200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
16	chr3:59863000-59863200	Enhancers	Brain Hippocampus Middle	brain
17	chr3:59863000-59863400	Enhancers	Breast Myoepithelial Primary Cells	Breast
18	chr3:59863000-59864000	Weak transcription	Dnd41	blood
19	chr3:59863000-59864200	Enhancers	Fetal Intestine Small	intestine
20	chr3:59863000-59864600	Enhancers	HMEC	breast
21	chr3:59863000-59865200	Enhancers	NHEK	skin

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