Variant report

Variant	rs10963922
Chromosome Location	chr9:19033058-19033059
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 21 )
Associated
traits (count: 4 )

rSNPs within LD-proxies of this variant (count:16)

rs_ID	r²[population]
rs10511668	0.89[CEU][hapmap];0.86[GIH][hapmap];0.91[JPT][hapmap];0.97[TSI][hapmap];0.83[EUR][1000 genomes]
rs10757023	0.96[CEU][hapmap];0.86[JPT][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10811094	0.80[ASW][hapmap];0.85[CEU][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap]
rs10811098	0.86[ASW][hapmap];0.89[CEU][hapmap];0.81[GIH][hapmap];0.91[JPT][hapmap];0.89[MKK][hapmap];0.83[TSI][hapmap]
rs10963932	0.83[CEU][hapmap];0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs10963935	0.91[CEU][hapmap]
rs10963936	0.85[CEU][hapmap]
rs10963938	0.85[CEU][hapmap];0.85[LWK][hapmap]
rs10963948	0.81[CEU][hapmap]
rs12348730	0.89[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs2095545	0.92[AFR][1000 genomes];0.84[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs2171953	0.93[AFR][1000 genomes];0.93[EUR][1000 genomes]
rs7022093	0.97[AFR][1000 genomes];0.81[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7022613	0.81[ASW][hapmap];0.81[CEU][hapmap];0.92[LWK][hapmap];0.84[MKK][hapmap];0.81[TSI][hapmap];0.94[YRI][hapmap];0.82[AFR][1000 genomes]
rs7038917	0.96[AFR][1000 genomes];0.80[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7859319	0.97[AFR][1000 genomes];0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 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	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:4)

SNP	Gene	Cis/trans	Tissue	Source
rs10963922	IFNB1	cis	cerebellum	SCAN
rs10963922	PLIN2	cis	lymphoblastoid	seeQTL
rs10963922	RRAGA	cis	cerebellum	SCAN
rs10963922	FAM29A	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:19032600-19033200	Bivalent Enhancer	Fetal Muscle Trunk	muscle
2	chr9:19032800-19033800	Enhancers	iPS DF 19.11 Cell Line	embryonic stem cell

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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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