Variant report

Variant	rs7656323
Chromosome Location	chr4:82120029-82120030
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 27 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs17005069	0.97[ASN][1000 genomes]
rs17005071	0.97[ASN][1000 genomes]
rs17005073	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005074	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005075	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005076	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005077	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005078	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005080	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs17005082	0.84[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs17005086	1.00[EUR][1000 genomes]
rs17005090	0.81[CEU][hapmap]
rs2028643	1.00[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs3733551	0.97[ASN][1000 genomes]
rs41414947	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs56405539	0.88[ASN][1000 genomes]
rs57715585	0.97[EUR][1000 genomes]
rs6849299	1.00[CHB][hapmap];0.95[CHD][hapmap];0.92[GIH][hapmap];1.00[JPT][hapmap];0.94[MEX][hapmap];0.82[TSI][hapmap];0.84[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs6850526	0.95[CEU][hapmap];0.83[GIH][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs6857838	0.83[GIH][hapmap];0.82[EUR][1000 genomes]
rs731112	0.84[AMR][1000 genomes]
rs733241	1.00[CEU][hapmap];0.92[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs751296	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs751297	1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs9884233	1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][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	nsv999729	chr4:81802554-82627820	Genic enhancers Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
2	nsv537156	chr4:81802554-82627820	Flanking Active TSS Strong transcription Enhancers Weak transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7656323	LIPG	trans	lymphoblastoid	seeQTL

Chromatin state (count:16 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:82116000-82121000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr4:82116200-82120200	Enhancers	Rectal Smooth Muscle	rectum
3	chr4:82116200-82121200	Weak transcription	NHLF	lung
4	chr4:82117000-82120200	Genic enhancers	Fetal Intestine Large	intestine
5	chr4:82117400-82121000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
6	chr4:82117600-82120400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr4:82117600-82121200	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr4:82118600-82121200	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr4:82119600-82120200	Enhancers	Fetal Brain Male	brain
10	chr4:82119600-82120800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr4:82119800-82121800	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
12	chr4:82119800-82125000	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr4:82120000-82120200	Enhancers	Fetal Intestine Small	intestine
14	chr4:82120000-82121000	Weak transcription	NHDF-Ad	bronchial
15	chr4:82120000-82121200	Weak transcription	Gastric	stomach
16	chr4:82120000-82123200	Weak transcription	Fetal Brain Female	brain

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