Variant report

Variant	rs11162350
Chromosome Location	chr1:77929479-77929480
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:21)

rs_ID	r²[population]
rs10782651	1.00[CEU][hapmap];0.82[CHB][hapmap];0.90[CHD][hapmap];0.92[GIH][hapmap];0.95[JPT][hapmap];0.91[MEX][hapmap];0.96[TSI][hapmap];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10873942	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11162348	0.99[ASN][1000 genomes]
rs12066994	0.96[ASN][1000 genomes]
rs12732787	0.98[ASN][1000 genomes]
rs1498405	1.00[ASN][1000 genomes]
rs1874817	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2221084	0.99[ASN][1000 genomes]
rs2247742	0.90[JPT][hapmap];1.00[ASN][1000 genomes]
rs2251456	0.94[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2647503	0.82[CHB][hapmap];0.90[CHD][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]
rs2647504	0.83[ASN][1000 genomes]
rs2803162	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2803165	0.99[ASN][1000 genomes]
rs3113637	1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap]
rs3121778	0.95[ASN][1000 genomes]
rs6603950	0.85[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6687876	1.00[ASN][1000 genomes]
rs7522356	0.96[CEU][hapmap];0.91[TSI][hapmap]
rs7534707	0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7542588	0.85[CEU][hapmap];0.82[CHB][hapmap];0.95[JPT][hapmap];0.83[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1005183	chr1:77728990-77949309	Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv535010	chr1:77728990-77949309	Bivalent Enhancer Weak transcription Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv932557	chr1:77730247-77958687	Flanking Active TSS Enhancers Strong transcription Weak transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
4	nsv1003714	chr1:77756861-77949309	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent Enhancer Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv470719	chr1:77774413-78269207	Weak transcription Enhancers Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
6	nsv546591	chr1:77774413-78269207	Active TSS Weak transcription Flanking Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
7	nsv462095	chr1:77903611-77951460	Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers	Chromatin interactive region	n/a	inside rSNPs	diseases
8	nsv546592	chr1:77903611-77951460	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers ZNF genes & repeats	Chromatin interactive region	n/a	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11162350	NEXN	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:77911200-77934000	Weak transcription	HSMM	muscle
2	chr1:77913000-77934400	Weak transcription	Muscle Satellite Cultured Cells	--
3	chr1:77913200-77930000	Weak transcription	Primary T helper cells PMA-I stimulated	--
4	chr1:77913200-77937000	Weak transcription	Primary T cells from cord blood	blood
5	chr1:77913200-77968400	Weak transcription	Primary T helper cells fromperipheralblood	blood
6	chr1:77914600-77955600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
7	chr1:77915200-77933600	Weak transcription	NHLF	lung
8	chr1:77921800-77930200	Weak transcription	Brain Substantia Nigra	brain
9	chr1:77925800-77932800	Weak transcription	NHDF-Ad	bronchial
10	chr1:77925800-77933400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr1:77926000-77931600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
12	chr1:77926000-77933600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
13	chr1:77926400-77929800	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr1:77926600-77933600	Weak transcription	Primary monocytes fromperipheralblood	blood
15	chr1:77928000-77930400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
16	chr1:77929400-77930200	Enhancers	Primary T helper naive cells fromperipheralblood	blood
17	chr1:77929400-77931000	Enhancers	Brain Inferior Temporal Lobe	brain
18	chr1:77929400-77935400	Enhancers	Brain Hippocampus Middle	brain
19	chr1:77929400-77935800	Enhancers	Brain Cingulate Gyrus	brain

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