Variant report

Variant	rs7553187
Chromosome Location	chr1:79789754-79789755
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 48 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:42)

rs_ID	r²[population]
rs10732727	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs10735756	0.85[AMR][1000 genomes]
rs10735757	0.95[AMR][1000 genomes];0.88[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10747361	0.88[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10874032	0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11162675	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs11162678	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs11162684	0.89[AMR][1000 genomes]
rs11162685	0.89[AMR][1000 genomes]
rs12127263	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs12143992	0.83[ASN][1000 genomes]
rs1331707	0.99[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1331713	0.88[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1331714	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs1331716	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs1331718	0.84[AMR][1000 genomes]
rs1412129	0.98[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1412130	0.92[AMR][1000 genomes];0.86[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1412131	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs1412132	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1412133	0.93[AMR][1000 genomes];0.85[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1412134	0.97[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs1412135	1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1412137	0.89[AMR][1000 genomes]
rs1412139	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1888766	0.97[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs1929622	0.91[AMR][1000 genomes]
rs2026951	0.81[AMR][1000 genomes]
rs2039339	0.85[AMR][1000 genomes]
rs2882993	0.97[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs2989850	0.84[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs3015124	0.84[AMR][1000 genomes]
rs3015126	0.83[AMR][1000 genomes]
rs3915745	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4650405	0.84[AMR][1000 genomes]
rs5012068	0.89[AMR][1000 genomes]
rs6424649	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7515632	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7528017	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7542083	0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7546136	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7546200	0.90[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv491784	chr1:79146141-79853482	Enhancers Flanking Active TSS Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv871182	chr1:79614989-79822735	Enhancers Flanking Active TSS Active TSS Weak transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv870657	chr1:79701220-79890774	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv870962	chr1:79755185-79835066	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	esv3364783	chr1:79786074-79815088	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a
6	esv3384616	chr1:79788134-79814492	Active TSS Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:79788000-79789800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:79788000-79789800	Enhancers	NHDF-Ad	bronchial
3	chr1:79788200-79790000	Enhancers	NHLF	lung
4	chr1:79788400-79789800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
5	chr1:79788400-79789800	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
6	chr1:79788400-79789800	Enhancers	HMEC	breast
7	chr1:79788600-79789800	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr1:79788600-79789800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr1:79788800-79789800	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
10	chr1:79788800-79789800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
11	chr1:79788800-79789800	Enhancers	Placenta	Placenta
12	chr1:79789000-79789800	Enhancers	Muscle Satellite Cultured Cells	--
13	chr1:79789400-79789800	Enhancers	NH-A	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links