Variant report

Variant	rs7090346
Chromosome Location	chr10:91193322-91193323
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:91189486..91191053-chr10:91193150..91195788,2	MCF-7	breast:
2	chr10:91186724..91190191-chr10:91191424..91194193,3	K562	blood:
3	chr10:91191992..91194151-chr10:91198434..91201193,2	K562	blood:

Extended variants
information (count: 36 )
Associated
traits (count: 8 )

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10509572	0.90[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap]
rs10788642	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10887950	0.90[CEU][hapmap];0.81[CHD][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap];0.86[TSI][hapmap];0.86[EUR][1000 genomes]
rs10887953	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.87[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10887957	0.89[AMR][1000 genomes];0.97[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10887959	0.95[CEU][hapmap];0.87[CHB][hapmap];0.92[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs11203063	0.85[CEU][hapmap];0.82[JPT][hapmap]
rs11203099	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap]
rs11203105	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11203106	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11203109	0.95[CEU][hapmap];1.00[CHB][hapmap];0.88[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11203112	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11203115	0.90[CEU][hapmap];0.87[CHB][hapmap];0.84[CHD][hapmap];0.84[GIH][hapmap];0.82[JPT][hapmap];0.86[MEX][hapmap];0.97[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs11203119	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs12244233	0.90[CEU][hapmap];0.87[CHB][hapmap];0.81[CHD][hapmap]
rs12255504	0.90[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap]
rs12356008	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12781453	0.86[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12781505	0.93[AMR][1000 genomes];0.96[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs1332330	0.85[CEU][hapmap];0.82[JPT][hapmap]
rs1591051	0.90[CEU][hapmap];0.87[CHB][hapmap]
rs17120325	0.95[CEU][hapmap];0.93[CHB][hapmap];0.86[JPT][hapmap]
rs17121248	0.95[CEU][hapmap];0.87[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];0.82[JPT][hapmap];1.00[MEX][hapmap];0.97[TSI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2070845	0.81[CEU][hapmap]
rs35359667	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs3740027	0.81[CEU][hapmap]
rs3780878	0.90[CEU][hapmap];0.87[CHB][hapmap];0.80[CHD][hapmap];0.82[JPT][hapmap]
rs6586183	0.90[CEU][hapmap];0.87[CHB][hapmap];0.80[CHD][hapmap];0.82[JPT][hapmap]
rs6586196	0.90[CEU][hapmap];0.80[TSI][hapmap];0.81[EUR][1000 genomes]
rs7088579	0.90[CEU][hapmap];0.81[CHB][hapmap];0.84[CHD][hapmap]
rs7897619	0.90[CEU][hapmap];0.87[CHB][hapmap];0.80[CHD][hapmap];0.82[JPT][hapmap]
rs7897873	0.90[CEU][hapmap];0.86[CHB][hapmap];0.82[JPT][hapmap]
rs7916812	0.81[CEU][hapmap];0.87[CHB][hapmap];0.82[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 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

mRNA abundance (count:8)

SNP	Gene	Cis/trans	Tissue	Source
rs7090346	IFIT5	cis	lymphoblastoid	seeQTL
rs7090346	IFIT5	Cis_1M	lymphoblastoid	RTeQTL
rs7090346	LIPN	cis	cerebellum	SCAN
rs7090346	IFIT5	cis	multi-tissue	Pritchard
rs7090346	C10orf116	cis	cerebellum	SCAN
rs7090346	CH25H	cis	cerebellum	SCAN
rs7090346	IFIT1B	cis	lymphoblastoid	seeQTL
rs7090346	IFIT5	cis	Lymphoblastoid	GTEx

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91178200-91197600	Weak transcription	Pancreas	Pancrea
2	chr10:91179600-91225600	Weak transcription	Pancreatic Islets	Pancreatic Islet
3	chr10:91188600-91194400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
4	chr10:91189000-91194000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
5	chr10:91189000-91194400	Weak transcription	H9 Cell Line	embryonic stem cell
6	chr10:91189800-91194400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
7	chr10:91191200-91193600	Enhancers	Fetal Heart	heart
8	chr10:91192000-91193800	Active TSS	Right Ventricle	heart
9	chr10:91192000-91200000	Weak transcription	Aorta	Aorta
10	chr10:91192400-91195000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr10:91192600-91200000	Weak transcription	Psoas Muscle	Psoas
12	chr10:91193000-91198200	Weak transcription	Left Ventricle	heart

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