Variant report

Variant	rs304493
Chromosome Location	chr10:91142586-91142587
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 36 )
Associated
traits (count: 14 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10788641	0.89[GIH][hapmap];0.95[MEX][hapmap]
rs11203078	0.84[GIH][hapmap]
rs184236	0.83[CEU][hapmap];0.81[TSI][hapmap]
rs188589	0.83[CEU][hapmap];0.81[TSI][hapmap]
rs188591	0.85[EUR][1000 genomes]
rs191027	0.86[AMR][1000 genomes]
rs303208	0.85[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.87[ASN][1000 genomes]
rs303209	0.84[CEU][hapmap]
rs303210	0.88[CEU][hapmap];0.81[TSI][hapmap]
rs303212	0.85[CHB][hapmap];0.97[CHD][hapmap];0.91[JPT][hapmap];0.82[LWK][hapmap];0.81[MEX][hapmap];0.81[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs303215	0.88[CEU][hapmap];0.82[EUR][1000 genomes]
rs303216	0.82[EUR][1000 genomes]
rs303218	0.94[CEU][hapmap];0.91[JPT][hapmap];0.82[TSI][hapmap];0.83[EUR][1000 genomes]
rs304437	0.88[CEU][hapmap]
rs304441	0.88[CEU][hapmap]
rs304447	0.82[CEU][hapmap];0.81[TSI][hapmap]
rs304484	0.91[ASN][1000 genomes]
rs304492	0.84[EUR][1000 genomes]
rs304498	0.94[CEU][hapmap];0.94[CHB][hapmap];1.00[JPT][hapmap];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs304499	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs304500	0.94[CEU][hapmap];0.95[JPT][hapmap];0.82[TSI][hapmap];0.85[EUR][1000 genomes]
rs304501	0.89[GIH][hapmap];0.95[MEX][hapmap];0.80[AMR][1000 genomes]
rs304502	0.88[CEU][hapmap];0.84[MEX][hapmap];0.83[EUR][1000 genomes]
rs304503	0.84[EUR][1000 genomes]
rs304505	0.88[CEU][hapmap];0.82[TSI][hapmap];0.84[EUR][1000 genomes]
rs304506	0.88[CEU][hapmap];0.84[EUR][1000 genomes]
rs304508	0.89[GIH][hapmap];0.94[MEX][hapmap];0.80[AMR][1000 genomes]
rs305374	0.83[CEU][hapmap];0.96[YRI][hapmap];0.88[AMR][1000 genomes]
rs627127	0.89[ASW][hapmap];0.83[CEU][hapmap];0.89[GIH][hapmap];0.82[LWK][hapmap];0.90[MEX][hapmap];0.96[YRI][hapmap];0.88[AMR][1000 genomes]
rs627496	0.80[AMR][1000 genomes]
rs7916812	0.83[YRI][hapmap]

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	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
4	nsv1040375	chr10:91022218-91153074	Enhancers Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
5	esv34085	chr10:91065949-91174175	Enhancers Weak transcription Active TSS Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:14)

SNP	Gene	Cis/trans	Tissue	Source
rs304493	IFIT5	cis	cerebellum	SCAN
rs304493	IFIT5	cis	lymphoblastoid	seeQTL
rs304493	IFIT5	cis	Nerve Tibial	GTEx
rs304493	IFIT5	Cis_1M	lymphoblastoid	RTeQTL
rs304493	IFIT5	cis	Thyroid	GTEx
rs304493	IFIT5	cis	Esophagus Muscularis	GTEx
rs304493	IFIT5	cis	Skin Sun Exposed Lower leg	GTEx
rs304493	IFIT5	cis	Esophagus Mucosa	GTEx
rs304493	IFIT1	cis	cerebellum	SCAN
rs304493	LIPA	cis	parietal	SCAN
rs304493	IFIT5	cis	Artery Tibial	GTEx
rs304493	IFIT1	Cis_1M	lymphoblastoid	RTeQTL
rs304493	IFIT1	cis	parietal	SCAN
rs304493	IFIT5	cis	parietal	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91134800-91142600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
2	chr10:91135000-91150200	Weak transcription	Fetal Brain Male	brain
3	chr10:91141000-91150000	Weak transcription	Fetal Heart	heart
4	chr10:91142400-91144600	Enhancers	Primary hematopoietic stem cells short term culture	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links