Variant report

Variant	rs2465110
Chromosome Location	chr12:45258032-45258033
allele	C/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:57)

rs_ID	r²[population]
rs10506258	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10785535	0.92[AMR][1000 genomes];0.87[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10785536	0.82[AMR][1000 genomes]
rs10785537	0.81[AMR][1000 genomes]
rs10785538	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10785540	0.89[EUR][1000 genomes]
rs11524561	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11615964	0.84[ASN][1000 genomes]
rs12316579	0.81[AMR][1000 genomes]
rs12818329	0.81[AMR][1000 genomes]
rs1376126	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1395397	0.92[EUR][1000 genomes]
rs1506676	0.84[ASN][1000 genomes]
rs1506678	0.84[ASN][1000 genomes]
rs1506679	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1506680	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1605296	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1605297	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1605298	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1857927	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1876241	0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2055677	0.92[EUR][1000 genomes]
rs2258058	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2408084	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2408085	0.92[AMR][1000 genomes]
rs2465108	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2465109	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2658948	0.98[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2658951	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2658954	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs2658957	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2658959	0.94[AFR][1000 genomes];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs2658965	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2658966	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2710453	0.92[EUR][1000 genomes]
rs2710455	0.81[AMR][1000 genomes]
rs2710457	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2710459	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs2710460	0.82[AMR][1000 genomes]
rs2710461	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2939697	0.81[AFR][1000 genomes];0.89[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs2939698	0.82[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4238095	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4300447	0.89[EUR][1000 genomes]
rs4499065	0.95[AMR][1000 genomes]
rs4768075	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4768577	0.82[AMR][1000 genomes]
rs55741117	0.92[EUR][1000 genomes]
rs57190502	0.82[AMR][1000 genomes]
rs7295923	0.83[ASN][1000 genomes]
rs7304472	0.84[ASN][1000 genomes]
rs7312377	0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7952764	0.84[ASN][1000 genomes]
rs7973268	0.90[AMR][1000 genomes]
rs7979717	0.83[ASN][1000 genomes]
rs884259	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs884260	0.94[AFR][1000 genomes];0.90[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3378050	chr12:44963059-45264289	Weak transcription Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
2	nsv832394	chr12:45077573-45269305	Bivalent Enhancer Active TSS Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh 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	n/a
3	nsv1036926	chr12:45131884-45273648	Flanking Active TSS Enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
4	nsv541484	chr12:45131884-45273648	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr12:45248600-45259600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr12:45253600-45258200	Enhancers	Primary T helper naive cells from peripheral blood	blood
3	chr12:45254600-45258200	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
4	chr12:45256000-45258800	ZNF genes & repeats	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr12:45256600-45259800	Weak transcription	Fetal Brain Female	brain
6	chr12:45257000-45266800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
7	chr12:45257200-45258600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
8	chr12:45257400-45259800	Weak transcription	Primary T helper cells fromperipheralblood	blood
9	chr12:45257400-45259800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
10	chr12:45257400-45265200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
11	chr12:45257600-45258800	ZNF genes & repeats	H9 Derived Neuron Cultured Cells	ES cell derived
12	chr12:45257800-45258200	Enhancers	Primary T helper cells PMA-I stimulated	--
13	chr12:45257800-45258600	ZNF genes & repeats	Brain Germinal Matrix	brain
14	chr12:45258000-45258600	Enhancers	Primary T killer naive cells fromperipheralblood	blood

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