Variant report

Variant	rs10195880
Chromosome Location	chr2:182054868-182054869
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 61 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:58)

rs_ID	r²[population]
rs10177832	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10194025	0.96[EUR][1000 genomes]
rs10194653	0.91[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10204666	0.83[CHB][hapmap]
rs10207887	0.98[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs10930960	0.96[EUR][1000 genomes]
rs11676297	0.90[ASN][1000 genomes]
rs11889566	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11902868	0.93[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12052256	0.97[ASN][1000 genomes]
rs13008615	0.92[EUR][1000 genomes]
rs13032688	0.96[EUR][1000 genomes]
rs13035390	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs17365432	0.84[CEU][hapmap]
rs2368190	0.81[CHB][hapmap]
rs4233789	0.89[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4233791	0.96[EUR][1000 genomes]
rs4233792	0.95[EUR][1000 genomes]
rs4233795	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4233796	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4233797	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4254470	0.95[EUR][1000 genomes]
rs4374330	0.98[EUR][1000 genomes]
rs4432411	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4441426	0.96[EUR][1000 genomes]
rs4441427	0.96[EUR][1000 genomes]
rs4441428	0.83[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4441429	0.96[EUR][1000 genomes]
rs4462758	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4473348	0.96[EUR][1000 genomes]
rs4511685	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4539757	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4666719	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4666722	0.96[EUR][1000 genomes]
rs4666723	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4666725	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4667082	0.94[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs4667121	0.97[ASN][1000 genomes]
rs4667122	0.97[ASN][1000 genomes]
rs4667141	0.96[EUR][1000 genomes]
rs4667142	0.96[EUR][1000 genomes]
rs4667158	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4667162	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6433897	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6433900	0.94[ASN][1000 genomes]
rs6433901	0.96[EUR][1000 genomes]
rs6717590	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6723271	0.95[EUR][1000 genomes]
rs6730853	0.94[EUR][1000 genomes]
rs6734603	0.91[EUR][1000 genomes]
rs6737752	0.93[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6747566	0.96[EUR][1000 genomes]
rs6747797	0.83[CHB][hapmap]
rs6750529	0.83[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7355504	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7355566	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7355692	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs7424715	0.85[AMR][1000 genomes];0.96[EUR][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	nsv431824	chr2:181946115-182118559	ZNF genes & repeats Flanking Active TSS Weak transcription Enhancers Genic enhancers Bivalent Enhancer Active TSS Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	nsv1005870	chr2:181968637-182921439	Enhancers Strong transcription Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
3	nsv536063	chr2:181968637-182921439	Enhancers Active TSS Weak transcription Strong transcription Bivalent/Poised TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:182044000-182055400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr2:182045400-182062000	Weak transcription	Dnd41	blood
3	chr2:182049200-182055400	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr2:182050800-182063400	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr2:182053400-182055600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
6	chr2:182053600-182055000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
7	chr2:182053800-182055200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr2:182054000-182055600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
9	chr2:182054000-182055600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
10	chr2:182054200-182056200	Enhancers	HSMM	muscle
11	chr2:182054200-182056600	Enhancers	HSMMtube	muscle
12	chr2:182054600-182055400	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr2:182054600-182055600	Weak transcription	Primary T cells from cord blood	blood
14	chr2:182054800-182055400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr2:182054800-182061400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood

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