Variant report

Variant	rs6597146
Chromosome Location	chr6:5582367-5582368
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 24 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs2064109	0.81[EUR][1000 genomes]
rs2326651	0.81[EUR][1000 genomes]
rs4960107	0.83[EUR][1000 genomes]
rs4960108	0.83[EUR][1000 genomes]
rs6597144	0.84[EUR][1000 genomes]
rs6597147	0.83[EUR][1000 genomes]
rs6903542	0.84[EUR][1000 genomes]
rs6941763	0.83[EUR][1000 genomes]
rs7739718	0.81[EUR][1000 genomes]
rs7744153	0.81[EUR][1000 genomes]
rs7744367	0.81[EUR][1000 genomes]
rs7744837	0.82[EUR][1000 genomes]
rs7765256	0.81[EUR][1000 genomes]
rs9328318	0.81[EUR][1000 genomes]
rs9328320	0.81[EUR][1000 genomes]
rs9392084	0.81[EUR][1000 genomes]
rs9405276	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 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
7	nsv981213	chr6:5578587-5582864	Weak transcription Enhancers Active TSS Flanking Active TSS Strong transcription	Chromatin interactive region	n/a	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:5565200-5583200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr6:5574200-5583400	Weak transcription	NHDF-Ad	bronchial
3	chr6:5577400-5639800	Weak transcription	Fetal Intestine Small	intestine
4	chr6:5578200-5584200	Weak transcription	Fetal Lung	lung
5	chr6:5580800-5582800	Enhancers	Primary T killer naive cells fromperipheralblood	blood
6	chr6:5581000-5582600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
7	chr6:5581000-5614200	Weak transcription	Lung	lung
8	chr6:5581000-5640400	Weak transcription	Gastric	stomach
9	chr6:5581600-5584000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr6:5581600-5584400	Weak transcription	Brain Hippocampus Middle	brain
11	chr6:5582000-5583000	Enhancers	Primary T cells from cord blood	blood
12	chr6:5582000-5584000	Weak transcription	Muscle Satellite Cultured Cells	--
13	chr6:5582000-5584000	Weak transcription	HSMM	muscle
14	chr6:5582000-5584000	Weak transcription	HSMMtube	muscle
15	chr6:5582000-5584400	Weak transcription	Brain Inferior Temporal Lobe	brain
16	chr6:5582000-5586600	Weak transcription	Primary B cells from cord blood	blood
17	chr6:5582200-5595000	Weak transcription	Fetal Stomach	stomach

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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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