Variant report

Variant	rs11186338
Chromosome Location	chr10:92614402-92614403
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 70 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:68)

rs_ID	r²[population]
rs10881829	0.92[CHB][hapmap];0.89[CHD][hapmap];0.84[JPT][hapmap];0.85[ASN][1000 genomes]
rs10881831	0.92[ASN][1000 genomes]
rs10881833	0.91[CHB][hapmap];0.81[JPT][hapmap];0.93[ASN][1000 genomes]
rs10881834	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10881835	0.92[CHB][hapmap];0.92[JPT][hapmap];0.93[ASN][1000 genomes]
rs10881841	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.93[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881843	0.97[ASN][1000 genomes]
rs10881845	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10881846	0.89[CEU][hapmap];0.92[CHB][hapmap];0.89[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs10881848	0.85[CHB][hapmap];0.91[JPT][hapmap];0.97[ASN][1000 genomes]
rs10881850	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11186282	0.82[ASN][1000 genomes]
rs11186292	0.85[ASN][1000 genomes]
rs11186298	0.92[CHB][hapmap];0.93[CHD][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs11186299	0.92[CHB][hapmap];0.90[JPT][hapmap];0.87[ASN][1000 genomes]
rs11186305	0.92[ASN][1000 genomes]
rs11186306	0.92[CHB][hapmap];0.93[ASN][1000 genomes]
rs11186315	0.91[ASN][1000 genomes]
rs11186323	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11186333	0.92[CHB][hapmap];0.96[CHD][hapmap];0.92[JPT][hapmap];0.98[ASN][1000 genomes]
rs11186336	0.95[ASN][1000 genomes]
rs11186339	0.90[ASN][1000 genomes]
rs11186343	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.86[LWK][hapmap];1.00[ASN][1000 genomes]
rs11186344	1.00[ASN][1000 genomes]
rs11186346	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs11186352	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11186358	0.94[ASN][1000 genomes]
rs11186359	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11186360	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11186361	0.94[ASN][1000 genomes]
rs11186367	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.94[ASN][1000 genomes]
rs11186368	0.98[ASN][1000 genomes]
rs11498506	0.89[CEU][hapmap];0.92[CHB][hapmap];0.83[JPT][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11498507	0.93[ASN][1000 genomes]
rs11498662	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11527868	0.92[CHB][hapmap];0.96[CHD][hapmap];0.82[JPT][hapmap];0.93[ASN][1000 genomes]
rs12220866	0.92[CHB][hapmap];0.84[JPT][hapmap];0.87[ASN][1000 genomes]
rs12244538	0.94[ASN][1000 genomes]
rs12249377	0.89[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12255018	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs12256605	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12258938	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12261011	0.89[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];0.93[GIH][hapmap];0.84[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12264160	0.89[CEU][hapmap];0.92[CHB][hapmap];0.96[CHD][hapmap];0.96[GIH][hapmap];0.92[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1573253	0.85[ASN][1000 genomes]
rs1592143	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17102362	0.94[ASN][1000 genomes]
rs1891311	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.88[LWK][hapmap];1.00[ASN][1000 genomes]
rs1891312	0.97[ASN][1000 genomes]
rs2901026	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2901127	0.92[CHB][hapmap];0.96[CHD][hapmap];0.84[JPT][hapmap];0.95[ASN][1000 genomes]
rs3824739	0.85[CHD][hapmap]
rs4144422	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs4282910	0.92[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.96[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.90[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.91[AFR][1000 genomes];0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4284320	0.85[ASN][1000 genomes]
rs4586057	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs58578719	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs59257274	0.82[ASN][1000 genomes]
rs61481895	0.97[ASN][1000 genomes]
rs7082814	0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7085559	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7096568	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[ASN][1000 genomes]
rs73315609	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs73315628	0.98[ASN][1000 genomes]
rs74148885	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs7478556	0.82[ASN][1000 genomes]
rs7903584	0.94[ASN][1000 genomes]
rs7916720	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv948363	chr10:92084520-92614402	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
2	nsv831945	chr10:92590576-92793582	Active TSS Enhancers Flanking Active TSS Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11186338	IFIT1	cis	parietal	SCAN

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:92597800-92616200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr10:92610200-92615000	Weak transcription	Osteobl	bone
3	chr10:92610800-92615000	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr10:92612000-92614800	Weak transcription	H1 Cell Line	embryonic stem cell
5	chr10:92612600-92615000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr10:92614000-92614600	Flanking Active TSS	iPS-18 Cell Line	embryonic stem cell
7	chr10:92614000-92614800	Active TSS	iPS-20b Cell Line	embryonic stem cell
8	chr10:92614000-92614800	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr10:92614400-92614600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr10:92614400-92614800	Active TSS	HMEC	breast
11	chr10:92614400-92615000	Enhancers	NHEK	skin
12	chr10:92614400-92615800	Active TSS	ES-I3 Cell Line	embryonic stem cell
13	chr10:92614400-92618600	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
14	chr10:92614400-92618800	Bivalent/Poised TSS	HUES64 Cell Line	embryonic stem cell
15	chr10:92614400-92619000	Bivalent/Poised TSS	HUES6 Cell Line	embryonic stem cell

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