Variant report

Variant	rs6560543
Chromosome Location	chr9:79412471-79412472
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 10 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs4317645	0.85[EUR][1000 genomes]
rs7026661	0.85[EUR][1000 genomes]
rs7036892	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73653209	0.85[EUR][1000 genomes]
rs73653212	1.00[EUR][1000 genomes]
rs7862512	0.85[EUR][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	nsv869152	chr9:78742197-79583399	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1040363	chr9:79246366-79711737	Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
3	esv2758190	chr9:79365865-79673907	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
4	esv2759697	chr9:79365865-79673907	Bivalent Enhancer Flanking Bivalent TSS/Enh Weak transcription Genic enhancers Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:79393600-79423400	Weak transcription	Brain Cingulate Gyrus	brain
2	chr9:79400400-79423600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
3	chr9:79400800-79419400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
4	chr9:79404000-79419200	Weak transcription	Stomach Smooth Muscle	stomach
5	chr9:79404200-79418400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:79404400-79419400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr9:79405200-79418600	Weak transcription	HSMMtube	muscle
8	chr9:79408800-79413400	Weak transcription	Brain Angular Gyrus	brain
9	chr9:79410400-79423600	Weak transcription	Brain Substantia Nigra	brain
10	chr9:79411000-79413400	Weak transcription	Fetal Intestine Large	intestine
11	chr9:79411600-79421200	Weak transcription	Rectal Smooth Muscle	rectum
12	chr9:79411800-79412800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
13	chr9:79411800-79415400	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:79412000-79413200	Weak transcription	HSMM	muscle
15	chr9:79412000-79418600	Weak transcription	Aorta	Aorta
16	chr9:79412200-79412600	Weak transcription	Colon Smooth Muscle	Colon

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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

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