Variant report

Variant	rs7842055
Chromosome Location	chr8:121244089-121244090
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 32 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs1006203	0.94[ASN][1000 genomes]
rs10093861	0.92[CEU][hapmap];0.91[EUR][1000 genomes]
rs1010830	0.92[CEU][hapmap];0.83[TSI][hapmap];0.89[EUR][1000 genomes]
rs1010831	0.92[CEU][hapmap];0.83[TSI][hapmap];0.89[EUR][1000 genomes]
rs10955963	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11992238	0.91[EUR][1000 genomes]
rs12679689	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13258640	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs13258857	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs1563400	0.82[CHD][hapmap]
rs17827510	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs2198752	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2290519	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.86[AMR][1000 genomes];0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2305604	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.98[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.81[AMR][1000 genomes];1.00[ASN][1000 genomes]
rs35932543	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4871049	0.91[EUR][1000 genomes]
rs4871050	0.90[EUR][1000 genomes]
rs60791395	0.86[AFR][1000 genomes];0.88[AMR][1000 genomes];0.80[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6469903	0.91[EUR][1000 genomes]
rs6988293	0.89[GIH][hapmap];0.83[MEX][hapmap]
rs6994973	0.89[GIH][hapmap];0.83[MEX][hapmap]
rs7008903	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7013077	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7017267	0.86[EUR][1000 genomes]
rs7813903	0.89[EUR][1000 genomes]
rs7823333	0.90[CHB][hapmap];0.95[JPT][hapmap];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs7832461	0.89[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7832647	0.80[AMR][1000 genomes];0.81[EUR][1000 genomes];1.00[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	nsv891418	chr8:120600965-121301474	Active TSS Flanking Active TSS Weak transcription Strong transcription Enhancers Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	esv3348294	chr8:121000288-121250984	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
3	nsv891420	chr8:121194900-121561369	Enhancers Weak transcription Strong transcription Flanking Active TSS 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	6 gene(s)	inside rSNPs	diseases
4	nsv612112	chr8:121234298-121385167	Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7842055	MED30	cis	parietal	SCAN

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr8:121214200-121253400	Weak transcription	Duodenum Smooth Muscle	Duodenum
2	chr8:121215200-121260600	Weak transcription	Fetal Intestine Small	intestine
3	chr8:121217200-121261600	Weak transcription	Fetal Intestine Large	intestine
4	chr8:121222200-121255200	Weak transcription	Fetal Muscle Trunk	muscle
5	chr8:121229600-121249000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr8:121234800-121253800	Weak transcription	Fetal Muscle Leg	muscle
7	chr8:121238800-121244200	Strong transcription	Breast Myoepithelial Primary Cells	Breast
8	chr8:121239600-121244200	Strong transcription	Fetal Lung	lung
9	chr8:121240600-121254800	Weak transcription	Stomach Smooth Muscle	stomach
10	chr8:121240800-121253200	Weak transcription	NHDF-Ad	bronchial
11	chr8:121241000-121250600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
12	chr8:121241200-121251400	Weak transcription	Colon Smooth Muscle	Colon
13	chr8:121241200-121253200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
14	chr8:121241200-121253400	Weak transcription	Ovary	ovary
15	chr8:121241200-121254600	Weak transcription	Aorta	Aorta
16	chr8:121242600-121250200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
17	chr8:121243200-121245000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
18	chr8:121243400-121250000	Weak transcription	Fetal Stomach	stomach
19	chr8:121243800-121244400	Strong transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links