Variant report

Variant	rs1453981
Chromosome Location	chr1:77769528-77769529
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs11162318	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11584919	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11590456	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1167202	1.00[CEU][hapmap];1.00[CHB][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs1167212	1.00[CHB][hapmap];0.95[GIH][hapmap];0.87[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs12077763	1.00[CHD][hapmap]
rs12120921	1.00[CHD][hapmap]
rs12124822	1.00[CHB][hapmap];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12125503	0.81[CEU][hapmap];1.00[CHB][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12126330	0.82[EUR][1000 genomes]
rs12128049	0.81[CEU][hapmap];1.00[CHB][hapmap];0.90[GIH][hapmap];0.86[MEX][hapmap];0.83[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12132273	0.80[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.83[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12133976	1.00[CHB][hapmap]
rs12135843	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12136415	1.00[CEU][hapmap];1.00[CHB][hapmap];0.86[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12140227	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12141929	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.86[MEX][hapmap];0.86[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1377737	1.00[CHB][hapmap]
rs17098287	1.00[CHB][hapmap]
rs17100458	1.00[CHB][hapmap]
rs17100463	1.00[CHB][hapmap]
rs17100476	1.00[CHB][hapmap]
rs4949773	1.00[CHD][hapmap]
rs4949788	1.00[CHB][hapmap];1.00[CHD][hapmap];0.90[GIH][hapmap]
rs4949791	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4949794	1.00[CHB][hapmap]
rs61096452	0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61783074	0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61784657	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7546963	1.00[CHB][hapmap]
rs7550325	1.00[CHD][hapmap]

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	nsv1005183	chr1:77728990-77949309	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv535010	chr1:77728990-77949309	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv932557	chr1:77730247-77958687	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1003714	chr1:77756861-77949309	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:28 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77749000-77779200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:77749200-77778400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr1:77749400-77781600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
4	chr1:77750600-77772400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
5	chr1:77754400-77785800	Weak transcription	Brain Cingulate Gyrus	brain
6	chr1:77755200-77781600	Weak transcription	Osteobl	bone
7	chr1:77755800-77788200	Weak transcription	HSMMtube	muscle
8	chr1:77756800-77781600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
9	chr1:77757600-77777400	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr1:77758000-77778400	Weak transcription	Brain Angular Gyrus	brain
11	chr1:77758600-77771000	Weak transcription	Brain Anterior Caudate	brain
12	chr1:77759000-77781600	Weak transcription	NHLF	lung
13	chr1:77767200-77773600	Weak transcription	HSMM	muscle
14	chr1:77767400-77773400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr1:77767400-77774200	Weak transcription	Brain Hippocampus Middle	brain
16	chr1:77767600-77774400	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr1:77767600-77776600	Weak transcription	Muscle Satellite Cultured Cells	--
18	chr1:77767800-77773400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
19	chr1:77768200-77769600	Enhancers	Primary T helper cells PMA-I stimulated	--
20	chr1:77768800-77769600	Enhancers	Primary T helper cells fromperipheralblood	blood
21	chr1:77768800-77771800	Weak transcription	NHDF-Ad	bronchial
22	chr1:77769200-77769600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
23	chr1:77769200-77769600	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
24	chr1:77769200-77769600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
25	chr1:77769400-77769600	Enhancers	Primary T cells from cord blood	blood
26	chr1:77769400-77769600	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr1:77769400-77772400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr1:77769400-77773200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood

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