Variant report

Variant	rs11162142
Chromosome Location	chr1:76857061-76857062
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs1016715	0.94[ASN][1000 genomes]
rs10747346	0.94[ASN][1000 genomes]
rs10747347	0.94[ASN][1000 genomes]
rs10782617	0.95[ASN][1000 genomes]
rs10782619	0.94[ASN][1000 genomes]
rs10873881	0.96[ASN][1000 genomes]
rs10873883	0.91[ASN][1000 genomes]
rs11162135	0.94[ASN][1000 genomes]
rs11162136	0.94[ASN][1000 genomes]
rs11162137	0.92[ASN][1000 genomes]
rs11162138	0.89[ASN][1000 genomes]
rs11162139	0.90[ASN][1000 genomes]
rs11162141	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11162144	0.96[ASN][1000 genomes]
rs11162145	0.92[ASN][1000 genomes]
rs11162146	0.93[ASN][1000 genomes]
rs12021906	0.94[ASN][1000 genomes]
rs12029184	0.94[ASN][1000 genomes]
rs12032409	0.90[ASN][1000 genomes]
rs12034783	0.90[ASN][1000 genomes]
rs12035993	0.88[ASN][1000 genomes]
rs12037958	0.92[ASN][1000 genomes]
rs12038570	0.89[ASN][1000 genomes]
rs12040892	0.89[ASN][1000 genomes]
rs12043272	0.93[ASN][1000 genomes]
rs12046895	0.96[ASN][1000 genomes]
rs12562224	0.90[ASN][1000 genomes]
rs12562911	0.86[ASN][1000 genomes]
rs12749057	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs1325291	0.94[ASN][1000 genomes]
rs1325292	0.94[ASN][1000 genomes]
rs1359467	0.94[ASN][1000 genomes]
rs1359471	0.91[ASN][1000 genomes]
rs1408866	0.94[ASN][1000 genomes]
rs1952022	0.82[ASN][1000 genomes]
rs2031482	0.94[ASN][1000 genomes]
rs2147792	0.86[ASN][1000 genomes]
rs4426021	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4459158	0.93[ASN][1000 genomes]
rs4576696	0.94[ASN][1000 genomes]
rs61771501	0.93[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6664863	0.89[ASN][1000 genomes]
rs6666049	0.95[ASN][1000 genomes]
rs6677296	0.93[ASN][1000 genomes]
rs6678598	0.89[ASN][1000 genomes]
rs67776937	0.86[ASN][1000 genomes]
rs7339997	0.96[ASN][1000 genomes]
rs7340082	0.94[ASN][1000 genomes]
rs9437437	0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[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	nsv870621	chr1:76620313-76997071	Enhancers Weak transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
2	nsv534168	chr1:76718950-77039352	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
3	nsv1006776	chr1:76777323-76899975	Enhancers Strong transcription Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
4	nsv1014231	chr1:76781140-76880630	Weak transcription Enhancers Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer Flanking Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases
5	nsv462006	chr1:76826279-77042405	Active TSS Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Strong transcription ZNF genes & repeats	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases
6	nsv546585	chr1:76826279-77042405	Enhancers Weak transcription Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Bivalent Enhancer	Chromatin interactive region lncRNA	n/a	inside rSNPs	diseases

No data

Chromatin state (count:10 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:76847600-76857600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
2	chr1:76855800-76857400	Enhancers	Breast Myoepithelial Primary Cells	Breast
3	chr1:76856400-76857200	Weak transcription	Brain Angular Gyrus	brain
4	chr1:76856400-76857200	Weak transcription	Fetal Brain Male	brain
5	chr1:76856400-76858400	Weak transcription	Stomach Mucosa	stomach
6	chr1:76856800-76858800	Enhancers	Cortex derived primary cultured neurospheres	brain
7	chr1:76857000-76857200	Enhancers	Brain Substantia Nigra	brain
8	chr1:76857000-76857600	Enhancers	Brain Anterior Caudate	brain
9	chr1:76857000-76857800	Enhancers	Brain Inferior Temporal Lobe	brain
10	chr1:76857000-76858600	Enhancers	Brain Germinal Matrix	brain

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