Variant report

Variant	rs17810415
Chromosome Location	chr9:19032907-19032908
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs10511667	1.00[CHB][hapmap];0.80[ASN][1000 genomes]
rs17238021	0.94[CEU][hapmap];0.80[EUR][1000 genomes]
rs4645631	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs4977494	1.00[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs60269255	0.85[ASN][1000 genomes]
rs60661461	1.00[ASN][1000 genomes]
rs61048565	0.80[EUR][1000 genomes]
rs61312381	1.00[ASN][1000 genomes]
rs7037156	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs7848755	0.87[ASN][1000 genomes]
rs9406757	1.00[ASN][1000 genomes]
rs9406759	1.00[CHB][hapmap];1.00[JPT][hapmap]

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	nsv892692	chr9:18519699-19045502	Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Genic enhancers Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	8 gene(s)	inside rSNPs	diseases
2	nsv1017820	chr9:18882219-19587377	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
3	nsv540078	chr9:18882219-19587377	Genic enhancers Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
4	nsv892700	chr9:18979441-19156784	Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
5	nsv892701	chr9:18999837-19032907	Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
6	nsv519909	chr9:19027880-19033376	Bivalent Enhancer Weak transcription Enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs17810415	IFNA2	cis	cerebellum	SCAN
rs17810415	RRAGA	cis	cerebellum	SCAN

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:19032400-19033000	Enhancers	K562	blood
2	chr9:19032600-19033000	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr9:19032600-19033000	Flanking Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr9:19032600-19033000	Enhancers	Esophagus	oesophagus
5	chr9:19032600-19033000	Bivalent Enhancer	Fetal Muscle Leg	muscle
6	chr9:19032600-19033000	Bivalent Enhancer	Fetal Stomach	stomach
7	chr9:19032600-19033200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
8	chr9:19032800-19033800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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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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