Variant report

Variant	rs41292260
Chromosome Location	chr1:77779605-77779606
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:77613856..77614476-chr1:77778903..77779788,3	MCF-7	breast:
2	chr1:77684347..77685329-chr1:77778972..77779827,3	MCF-7	breast:
3	chr1:77773875..77776592-chr1:77778401..77780393,2	K562	blood:

Variant related genes	Relation type
ENSG00000142892	Chromatin interaction

Extended variants
information (count: 57 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs1010061	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs10443176	1.00[ASN][1000 genomes]
rs10518445	1.00[ASN][1000 genomes]
rs11162275	1.00[ASN][1000 genomes]
rs11162284	1.00[ASN][1000 genomes]
rs11162287	1.00[ASN][1000 genomes]
rs11576574	1.00[ASN][1000 genomes]
rs12077763	1.00[ASN][1000 genomes]
rs12090495	1.00[ASN][1000 genomes]
rs12119019	1.00[ASN][1000 genomes]
rs12120921	1.00[ASN][1000 genomes]
rs12123535	1.00[ASN][1000 genomes]
rs12126662	1.00[ASN][1000 genomes]
rs12143529	1.00[ASN][1000 genomes]
rs1305486	1.00[ASN][1000 genomes]
rs1502525	1.00[ASN][1000 genomes]
rs17100100	1.00[ASN][1000 genomes]
rs17100141	1.00[ASN][1000 genomes]
rs17100143	1.00[ASN][1000 genomes]
rs17100304	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs17368950	1.00[ASN][1000 genomes]
rs1827448	1.00[ASN][1000 genomes]
rs1993266	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs2004962	1.00[ASN][1000 genomes]
rs41292264	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs4949772	1.00[ASN][1000 genomes]
rs4949773	1.00[ASN][1000 genomes]
rs4949778	1.00[ASN][1000 genomes]
rs56666939	1.00[ASN][1000 genomes]
rs57267651	1.00[ASN][1000 genomes]
rs57389685	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs60792794	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs61782906	1.00[ASN][1000 genomes]
rs6603937	1.00[ASN][1000 genomes]
rs6696605	1.00[ASN][1000 genomes]
rs72683932	1.00[ASN][1000 genomes]
rs72944757	1.00[ASN][1000 genomes]
rs73002568	1.00[ASN][1000 genomes]
rs73004429	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73004430	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs73004434	0.82[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs7519485	1.00[ASN][1000 genomes]
rs7550325	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:14 , 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
5	esv3452343	chr1:77774348-77781734	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3452344	chr1:77774348-77781734	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	esv2762157	chr1:77774413-77779836	Weak transcription Enhancers Flanking Active TSS Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
8	esv3692769	chr1:77774413-77781567	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
9	nsv470719	chr1:77774413-78269207	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
10	nsv546591	chr1:77774413-78269207	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
11	esv11859	chr1:77774744-77781454	Enhancers Strong transcription Weak transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
12	nsv441697	chr1:77774872-77779832	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
13	esv2756848	chr1:77775014-77788462	Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
14	esv2758945	chr1:77775014-77788462	Weak transcription Enhancers Flanking Active TSS Genic enhancers Strong transcription Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77749400-77781600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr1:77754400-77785800	Weak transcription	Brain Cingulate Gyrus	brain
3	chr1:77755200-77781600	Weak transcription	Osteobl	bone
4	chr1:77755800-77788200	Weak transcription	HSMMtube	muscle
5	chr1:77756800-77781600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
6	chr1:77759000-77781600	Weak transcription	NHLF	lung
7	chr1:77771800-77780200	Strong transcription	NHDF-Ad	bronchial
8	chr1:77774000-77790400	Weak transcription	Brain Substantia Nigra	brain
9	chr1:77774800-77787200	Weak transcription	Brain Hippocampus Middle	brain
10	chr1:77777000-77794600	Weak transcription	Primary T helper cells fromperipheralblood	blood
11	chr1:77777800-77780000	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr1:77778000-77781600	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr1:77778600-77780200	Strong transcription	HSMM	muscle
14	chr1:77778800-77783200	Weak transcription	Primary T cells from cord blood	blood
15	chr1:77779200-77779800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
16	chr1:77779200-77784600	Weak transcription	Brain Angular Gyrus	brain
17	chr1:77779400-77779800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
18	chr1:77779400-77794400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr1:77779600-77781600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr1:77779600-77781600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
21	chr1:77779600-77781600	Weak transcription	NHEK	skin
22	chr1:77779600-77786200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr1:77779600-77787200	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr1:77779600-77794600	Weak transcription	Primary T helper naive cells from peripheral blood	blood

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