Variant report

Variant	rs11119604
Chromosome Location	chr1:210972557-210972558
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 50 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10465689	0.86[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.87[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10465690	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs11119591	0.93[CEU][hapmap];0.91[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11119592	0.89[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs1122901	0.80[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12117136	1.00[CEU][hapmap];1.00[JPT][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12122556	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12122589	0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12122593	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs12122869	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs12122965	1.00[JPT][hapmap]
rs12129155	1.00[JPT][hapmap]
rs12134429	1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12134632	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs12137464	0.93[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12139273	0.93[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.92[TSI][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12139474	0.93[CEU][hapmap];0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12143524	0.92[CEU][hapmap];0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12564968	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs12566698	0.84[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1340124	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1340125	0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1934612	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1934613	0.86[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];0.98[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs1934614	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs2185384	0.93[CEU][hapmap];1.00[GIH][hapmap];0.91[MEX][hapmap];0.92[TSI][hapmap];0.92[EUR][1000 genomes]
rs2884382	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs4113643	1.00[JPT][hapmap]
rs4951462	0.86[CEU][hapmap];1.00[JPT][hapmap];0.89[EUR][1000 genomes]
rs4951605	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56264689	0.88[EUR][1000 genomes]
rs56383511	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61829490	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs61829492	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs61829493	0.88[EUR][1000 genomes]
rs61829496	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61829499	0.89[EUR][1000 genomes]
rs6694502	1.00[CEU][hapmap];0.89[TSI][hapmap];0.89[EUR][1000 genomes]
rs73069563	0.84[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73069564	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs73069573	0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs73069579	0.85[EUR][1000 genomes]
rs7519357	1.00[CEU][hapmap];0.86[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7532333	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7532949	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap]
rs7541814	0.80[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv873148	chr1:210665583-210994339	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region lncRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
2	nsv873153	chr1:210900481-210994339	Enhancers Weak transcription Strong transcription Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Active TSS	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
3	nsv999018	chr1:210907239-210999306	Genic enhancers Enhancers Weak transcription Bivalent Enhancer Strong transcription Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
4	nsv832503	chr1:210948760-211103163	Weak transcription Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11119604	IL10	cis	cerebellum	SCAN

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:210941800-210978000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr1:210953400-210974400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr1:210965800-210975600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr1:210966800-210976800	Weak transcription	A549	lung
5	chr1:210967000-210979600	Weak transcription	Brain Cingulate Gyrus	brain
6	chr1:210967400-210973400	Weak transcription	Brain Angular Gyrus	brain
7	chr1:210967400-210985000	Weak transcription	Brain Hippocampus Middle	brain
8	chr1:210970800-210975400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr1:210971000-210973000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
10	chr1:210971000-210973000	Weak transcription	HSMMtube	muscle
11	chr1:210971000-210978800	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr1:210971200-210974200	Weak transcription	HSMM	muscle
13	chr1:210971200-210976200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
14	chr1:210971400-210973400	Weak transcription	Placenta	Placenta

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links