Variant report

Variant	rs13411962
Chromosome Location	chr2:190166677-190166678
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10165458	1.00[AMR][1000 genomes]
rs10166867	1.00[AMR][1000 genomes]
rs10168625	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs10174921	1.00[YRI][hapmap]
rs10176299	1.00[AMR][1000 genomes]
rs10180374	1.00[AMR][1000 genomes]
rs10182790	1.00[AMR][1000 genomes]
rs10182959	1.00[AMR][1000 genomes]
rs10193357	1.00[AMR][1000 genomes]
rs10200629	1.00[YRI][hapmap]
rs10202436	1.00[YRI][hapmap]
rs10202723	1.00[YRI][hapmap]
rs10202897	1.00[AMR][1000 genomes]
rs10203522	1.00[AMR][1000 genomes]
rs10205215	1.00[YRI][hapmap]
rs10210715	1.00[AMR][1000 genomes]
rs13382234	1.00[AMR][1000 genomes]
rs13385828	1.00[AMR][1000 genomes]
rs13389070	1.00[AMR][1000 genomes]
rs13392441	1.00[AMR][1000 genomes]
rs13395385	1.00[AMR][1000 genomes]
rs13396958	1.00[AMR][1000 genomes]
rs13398464	1.00[AMR][1000 genomes]
rs13401632	1.00[AMR][1000 genomes]
rs13403213	1.00[AMR][1000 genomes]
rs13407402	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13407452	1.00[YRI][hapmap]
rs13408124	1.00[AMR][1000 genomes]
rs13416565	1.00[AMR][1000 genomes]
rs13419998	1.00[AMR][1000 genomes]
rs13421412	1.00[AMR][1000 genomes]
rs13423791	1.00[AMR][1000 genomes]
rs13424504	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs13429628	1.00[YRI][hapmap]
rs13429781	1.00[AMR][1000 genomes]
rs13430867	1.00[AMR][1000 genomes]
rs13431520	1.00[AMR][1000 genomes]
rs13433016	1.00[AMR][1000 genomes]
rs28475172	1.00[AMR][1000 genomes]
rs28712861	1.00[AMR][1000 genomes]
rs6721230	1.00[YRI][hapmap]
rs6732228	1.00[AMR][1000 genomes]
rs6757248	1.00[YRI][hapmap];1.00[AMR][1000 genomes]
rs6760660	1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv533029	chr2:189812229-190554339	Active TSS Enhancers Weak transcription Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
2	nsv875613	chr2:189999011-190324685	Enhancers Weak transcription Active TSS Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	25 gene(s)	inside rSNPs	diseases
3	nsv875614	chr2:190110841-190254758	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:190159800-190170800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
2	chr2:190160000-190170400	Enhancers	Primary T killer naive cells fromperipheralblood	blood
3	chr2:190160000-190171000	Enhancers	Primary T helper cells fromperipheralblood	blood
4	chr2:190160200-190171200	Enhancers	Primary T killer memory cells from peripheral blood	blood
5	chr2:190162600-190171600	Enhancers	Primary T cells from cord blood	blood
6	chr2:190163000-190171800	Enhancers	Primary T helper naive cells fromperipheralblood	blood
7	chr2:190163400-190167000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
8	chr2:190163400-190169200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
9	chr2:190163400-190170800	Weak transcription	Placenta Amnion	Placenta Amnion
10	chr2:190163600-190166800	Weak transcription	HMEC	breast
11	chr2:190163600-190166800	Weak transcription	NHEK	skin
12	chr2:190163600-190167000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
13	chr2:190163600-190167400	Weak transcription	NH-A	brain
14	chr2:190163600-190169200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr2:190163600-190170200	Weak transcription	NHDF-Ad	bronchial
16	chr2:190165200-190169400	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
17	chr2:190165800-190168000	Enhancers	Dnd41	blood
18	chr2:190165800-190171200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
19	chr2:190165800-190171400	Enhancers	Primary T helper naive cells from peripheral blood	blood
20	chr2:190166000-190167000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
21	chr2:190166000-190167000	Weak transcription	Fetal Thymus	thymus
22	chr2:190166000-190167000	Weak transcription	Thymus	Thymus
23	chr2:190166000-190168600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
24	chr2:190166200-190171800	Enhancers	Primary T helper cells PMA-I stimulated	--
25	chr2:190166400-190168400	Weak transcription	Primary T cells fromperipheralblood	blood
26	chr2:190166400-190169400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
27	chr2:190166600-190167000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood

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