Variant report

Variant	rs7784712
Chromosome Location	chr7:19059890-19059891
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 15 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs10241964	0.87[EUR][1000 genomes]
rs10245779	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs10255384	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs11984041	0.84[CEU][hapmap];0.91[GIH][hapmap];0.88[MEX][hapmap];0.89[TSI][hapmap];0.84[AMR][1000 genomes]
rs13438248	1.00[CHD][hapmap]
rs2023937	0.83[CEU][hapmap];0.84[AMR][1000 genomes]
rs2023938	0.84[CEU][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];0.88[MEX][hapmap];0.88[TSI][hapmap]
rs2526619	0.86[EUR][1000 genomes]
rs2717334	0.85[EUR][1000 genomes]
rs28727433	0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs59111453	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7783974	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7792656	0.81[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531020	chr7:18971153-19261019	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv887817	chr7:19021592-19100076	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Active TSS	Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7784712	TOMM7	cis	cerebellum	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:19051200-19060200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
2	chr7:19056000-19063600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
3	chr7:19056400-19061800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr7:19057000-19060800	Weak transcription	NHDF-Ad	bronchial
5	chr7:19057200-19060200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
6	chr7:19058800-19060200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr7:19059000-19061600	Enhancers	HMEC	breast
8	chr7:19059400-19061200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
9	chr7:19059400-19061400	Enhancers	NHEK	skin
10	chr7:19059800-19061000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr7:19059800-19061000	Enhancers	Muscle Satellite Cultured Cells	--
12	chr7:19059800-19061000	Enhancers	HSMM	muscle
13	chr7:19059800-19061000	Enhancers	Osteobl	bone
14	chr7:19059800-19061200	Enhancers	NH-A	brain
15	chr7:19059800-19061400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin

Quick Search:

Input of quick search could be:

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

what's new

Quick links