Variant report

Variant	rs6586196
Chromosome Location	chr10:91194067-91194068
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 22 )
Associated
traits (count: 6 )

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10509572	0.81[CEU][hapmap]
rs10887950	0.81[CEU][hapmap]
rs10887953	0.85[CEU][hapmap]
rs10887959	0.85[CEU][hapmap]
rs11203099	0.81[CEU][hapmap]
rs11203109	0.85[CEU][hapmap]
rs11203115	0.81[CEU][hapmap]
rs12244233	0.81[CEU][hapmap]
rs12255504	0.81[CEU][hapmap]
rs1591051	0.81[CEU][hapmap]
rs17120325	0.85[CEU][hapmap]
rs17121248	0.85[CEU][hapmap]
rs2070845	0.81[CEU][hapmap]
rs3780878	0.81[CEU][hapmap]
rs6586183	0.81[CEU][hapmap]
rs7088579	0.81[CEU][hapmap]
rs7090346	0.90[CEU][hapmap];0.80[TSI][hapmap];0.81[EUR][1000 genomes]
rs7897619	0.81[CEU][hapmap]
rs7897873	0.81[CEU][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042848	chr10:90466032-91318474	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv540741	chr10:90466032-91318474	Enhancers Flanking Active TSS Weak transcription Genic enhancers Bivalent Enhancer ZNF genes & repeats Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
3	nsv1041964	chr10:90861380-91378356	Flanking Active TSS Enhancers Weak transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	82 gene(s)	inside rSNPs	diseases

mRNA abundance (count:6)

SNP	Gene	Cis/trans	Tissue	Source
rs6586196	CH25H	cis	cerebellum	SCAN
rs6586196	IFIT5	cis	lymphoblastoid	seeQTL
rs6586196	IFIT5	cis	multi-tissue	Pritchard
rs6586196	C10orf116	cis	cerebellum	SCAN
rs6586196	IFIT5	cis	brain	seeQTL
rs6586196	LDB3	cis	cerebellum	SCAN

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91178200-91197600	Weak transcription	Pancreas	Pancrea
2	chr10:91179600-91225600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr10:91188600-91194400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr10:91189000-91194400	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr10:91189800-91194400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr10:91192000-91200000	Weak transcription	Aorta	Aorta
7	chr10:91192400-91195000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
8	chr10:91192600-91200000	Weak transcription	Psoas Muscle	Psoas
9	chr10:91193000-91198200	Weak transcription	Left Ventricle	heart
10	chr10:91193600-91200000	Weak transcription	Fetal Heart	heart
11	chr10:91193800-91200000	Weak transcription	Right Ventricle	heart

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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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