Variant report

Variant	rs7756622
Chromosome Location	chr6:5583382-5583383
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs1983561	0.83[ASW][hapmap];0.83[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];0.85[GIH][hapmap];0.87[JPT][hapmap];0.98[LWK][hapmap];0.83[MEX][hapmap];0.92[MKK][hapmap];0.96[YRI][hapmap];0.93[AFR][1000 genomes];0.81[AMR][1000 genomes];0.92[ASN][1000 genomes]
rs2142737	0.94[ASW][hapmap];0.83[CEU][hapmap];0.95[CHB][hapmap];0.98[CHD][hapmap];0.87[GIH][hapmap];0.95[JPT][hapmap];0.87[LWK][hapmap];0.82[MEX][hapmap];0.97[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.91[AFR][1000 genomes];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4960103	0.91[CHB][hapmap];0.93[CHD][hapmap];0.85[GIH][hapmap];1.00[JPT][hapmap];0.81[TSI][hapmap];0.90[ASN][1000 genomes]
rs4960104	0.90[CHB][hapmap];1.00[JPT][hapmap];0.89[ASN][1000 genomes]
rs4960105	0.91[CHB][hapmap];1.00[JPT][hapmap];0.90[ASN][1000 genomes]
rs4960109	0.83[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.96[YRI][hapmap];0.94[AFR][1000 genomes];0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs4960110	0.82[LWK][hapmap];0.85[YRI][hapmap];0.81[AFR][1000 genomes]
rs6597145	0.82[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs742114	0.90[AFR][1000 genomes];0.97[ASN][1000 genomes]
rs7757733	0.94[AFR][1000 genomes];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs9405275	0.86[CHB][hapmap];0.84[JPT][hapmap];0.85[AFR][1000 genomes];0.97[ASN][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	nsv1019428	chr6:5216835-5627839	Enhancers Weak transcription Active TSS ZNF genes & repeats Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv538118	chr6:5216835-5627839	Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv916361	chr6:5315853-5695486	Weak transcription Enhancers Active TSS Strong transcription ZNF genes & repeats Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
4	nsv883420	chr6:5524393-5584422	Enhancers ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
5	nsv600887	chr6:5545046-5694713	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
6	nsv1016905	chr6:5566364-5639167	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7756622	WRNIP1	cis	parietal	SCAN

Chromatin state (count:17 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5574200-5583400	Weak transcription	NHDF-Ad	bronchial
2	chr6:5577400-5639800	Weak transcription	Fetal Intestine Small	intestine
3	chr6:5578200-5584200	Weak transcription	Fetal Lung	lung
4	chr6:5581000-5614200	Weak transcription	Lung	lung
5	chr6:5581000-5640400	Weak transcription	Gastric	stomach
6	chr6:5581600-5584000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr6:5581600-5584400	Weak transcription	Brain Hippocampus Middle	brain
8	chr6:5582000-5584000	Weak transcription	Muscle Satellite Cultured Cells	--
9	chr6:5582000-5584000	Weak transcription	HSMM	muscle
10	chr6:5582000-5584000	Weak transcription	HSMMtube	muscle
11	chr6:5582000-5584400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr6:5582000-5586600	Weak transcription	Primary B cells from cord blood	blood
13	chr6:5582200-5595000	Weak transcription	Fetal Stomach	stomach
14	chr6:5582800-5584600	Enhancers	Fetal Heart	heart
15	chr6:5583200-5583800	Enhancers	Stomach Mucosa	stomach
16	chr6:5583200-5584800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
17	chr6:5583200-5584800	Enhancers	Brain Germinal Matrix	brain

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

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