Variant report

Variant	rs17334741
Chromosome Location	chr10:90178456-90178457
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:37)

rs_ID	r²[population]
rs10509547	0.87[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10509548	0.87[CEU][hapmap];1.00[CHB][hapmap];1.00[MEX][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10509549	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];1.00[MEX][hapmap];0.82[TSI][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10509550	0.87[CEU][hapmap];1.00[CHB][hapmap];0.93[GIH][hapmap];0.86[TSI][hapmap];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10736359	0.82[CEU][hapmap]
rs10788590	1.00[CHB][hapmap]
rs1169042	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11816967	0.82[CEU][hapmap];1.00[CHB][hapmap];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1325901	0.82[CEU][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1325904	0.82[CEU][hapmap];0.80[MEX][hapmap]
rs1342457	0.82[CEU][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes]
rs1359582	0.84[ASW][hapmap];0.80[MEX][hapmap];0.87[AFR][1000 genomes]
rs1573074	0.90[CEU][hapmap];1.00[CHB][hapmap];0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17336288	0.86[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17426488	0.87[CEU][hapmap];1.00[CHB][hapmap];0.89[AFR][1000 genomes];0.95[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1774977	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1974053	0.87[AMR][1000 genomes]
rs1980813	0.80[MEX][hapmap]
rs2477953	0.82[CEU][hapmap];0.87[AMR][1000 genomes]
rs2576158	0.82[CEU][hapmap]
rs2576162	0.86[ASW][hapmap];0.80[MEX][hapmap];0.87[AFR][1000 genomes]
rs2576163	0.87[AFR][1000 genomes]
rs2576167	0.80[MEX][hapmap]
rs2576173	0.82[CEU][hapmap];0.87[AMR][1000 genomes]
rs2576175	0.87[AMR][1000 genomes]
rs2576177	0.82[CEU][hapmap]
rs2765451	0.89[CEU][hapmap];1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2765457	0.82[CEU][hapmap];1.00[MEX][hapmap];0.87[AMR][1000 genomes]
rs55713122	1.00[ASN][1000 genomes]
rs57260181	0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61852496	1.00[ASN][1000 genomes]
rs61852497	1.00[ASN][1000 genomes]
rs792201	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792202	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs792203	1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs792216	1.00[ASN][1000 genomes]
rs792231	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];1.00[AFR][1000 genomes];0.97[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]

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	nsv895879	chr10:90015725-90219298	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv482385	chr10:90066140-90259751	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
3	nsv948664	chr10:90076715-90517150	Enhancers Flanking Active TSS Weak transcription ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
4	nsv1054984	chr10:90122512-90278038	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1050587	chr10:90146582-90272627	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
6	nsv540739	chr10:90146582-90272627	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17334741	IFIT5	cis	parietal	SCAN

Chromatin state (count:14 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:90175600-90178600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr10:90175800-90178600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
3	chr10:90175800-90178600	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr10:90175800-90178800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
5	chr10:90175800-90178800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr10:90177400-90179000	Enhancers	Fetal Muscle Leg	muscle
7	chr10:90177600-90178600	Weak transcription	H9 Cell Line	embryonic stem cell
8	chr10:90177600-90178800	Weak transcription	HUES48 Cell Line	embryonic stem cell
9	chr10:90177600-90178800	Weak transcription	HUES64 Cell Line	embryonic stem cell
10	chr10:90177800-90178800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
11	chr10:90178000-90188000	Weak transcription	Fetal Lung	lung
12	chr10:90178200-90178600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
13	chr10:90178200-90180800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
14	chr10:90178400-90179200	Enhancers	HUES6 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links