Variant report

Variant	rs56405539
Chromosome Location	chr1:158922685-158922686
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17005069	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005071	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005073	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005074	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005075	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005076	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005077	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005078	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005080	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs17005082	0.91[ASN][1000 genomes]
rs3733551	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs41414947	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs6849299	0.84[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs731112	0.84[EUR][1000 genomes]
rs751296	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs751297	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7656323	0.88[ASN][1000 genomes]
rs9884233	0.93[EUR][1000 genomes];0.91[ASN][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	nsv1002401	chr1:158712627-158972031	Flanking Active TSS Strong transcription Active TSS Weak transcription Enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
2	esv3376764	chr1:158761947-158998617	Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Weak transcription Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
3	nsv1007597	chr1:158874806-158934301	Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
4	esv3369957	chr1:158915589-159003393	Strong transcription Genic enhancers Weak transcription Enhancers Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:158905800-158930200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
2	chr1:158913400-158922800	Strong transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr1:158913600-158922800	Strong transcription	Primary T helper cells PMA-I stimulated	--
4	chr1:158917200-158922800	Strong transcription	Primary T helper naive cells from peripheral blood	blood
5	chr1:158918400-158923400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
6	chr1:158920000-158923000	Strong transcription	Primary T helper cells fromperipheralblood	blood
7	chr1:158920600-158950600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr1:158921800-158922800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
9	chr1:158921800-158923000	Genic enhancers	Primary T cells fromperipheralblood	blood
10	chr1:158921800-158923000	Genic enhancers	Primary Natural Killer cells fromperipheralblood	blood
11	chr1:158922200-158922800	Genic enhancers	Primary T helper memory cells from peripheral blood 2	blood
12	chr1:158922200-158923000	Strong transcription	Primary T helper memory cells from peripheral blood 1	blood
13	chr1:158922400-158923000	Enhancers	Primary B cells from cord blood	blood
14	chr1:158922400-158923000	Enhancers	Primary B cells from peripheral blood	blood
15	chr1:158922400-158931000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr1:158922600-158922800	Strong transcription	Primary T cells from cord blood	blood
17	chr1:158922600-158923000	Strong transcription	Primary T regulatory cells fromperipheralblood	blood

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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