Variant report

Variant	rs16917019
Chromosome Location	chr9:101313371-101313372
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 26 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs11787646	0.84[CEU][hapmap]
rs11791441	0.88[CHB][hapmap];0.91[JPT][hapmap];0.92[ASN][1000 genomes]
rs12338626	0.85[YRI][hapmap]
rs12349351	0.86[YRI][hapmap]
rs16917113	1.00[CHB][hapmap];0.81[JPT][hapmap];0.83[ASN][1000 genomes]
rs16917159	1.00[CHB][hapmap];1.00[CHD][hapmap];0.80[ASN][1000 genomes]
rs16917171	0.88[CHB][hapmap];0.83[CHD][hapmap];0.82[JPT][hapmap]
rs1999498	0.82[YRI][hapmap]
rs2779600	0.82[YRI][hapmap]
rs2779602	0.86[YRI][hapmap]
rs4448404	1.00[CHB][hapmap];0.91[JPT][hapmap];1.00[ASN][1000 genomes]
rs73488500	0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs867762	0.82[JPT][hapmap]
rs867763	1.00[CHB][hapmap]
rs884888	0.86[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv430085	chr9:100928245-101339645	Flanking Active TSS Enhancers Weak transcription Genic enhancers Strong transcription Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
2	nsv831665	chr9:101170061-101367692	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv614936	chr9:101182698-101680380	Weak transcription Enhancers Flanking Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
4	esv3481710	chr9:101307131-101313629	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a
5	nsv511424	chr9:101308111-101313371	Bivalent Enhancer Weak transcription Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
6	nsv6633	chr9:101308371-101342811	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Strong transcription	TF binding region Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
7	esv1816890	chr9:101309058-101313371	Enhancers Bivalent Enhancer Weak transcription	Chromatin interactive region	n/a	inside rSNPs	n/a
8	esv1819538	chr9:101309058-101313371	Enhancers Weak transcription Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a
9	esv1837372	chr9:101309058-101313371	Weak transcription Enhancers Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a
10	esv1839134	chr9:101309058-101313371	Weak transcription Bivalent Enhancer Enhancers	Chromatin interactive region	n/a	inside rSNPs	n/a
11	esv1841097	chr9:101309058-101317401	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer	Chromatin interactive region	n/a	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs16917019	RNF20	cis	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:101311800-101315400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr9:101311800-101316600	Enhancers	Cortex derived primary cultured neurospheres	brain
3	chr9:101312000-101314000	Enhancers	NH-A	brain
4	chr9:101312200-101313800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain

Quick Search:

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

what's new

Quick links