Variant report

Variant	rs16848146
Chromosome Location	chr2:142858998-142858999
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 23 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10166998	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10176462	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10177469	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs10193349	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10469550	0.81[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12691633	0.80[YRI][hapmap]
rs13382560	0.81[EUR][1000 genomes]
rs13395874	0.81[EUR][1000 genomes]
rs13396189	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13405497	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13418339	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13432503	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs56141936	1.00[EUR][1000 genomes]
rs57153124	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs60571278	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73963423	0.81[EUR][1000 genomes]
rs73963448	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7590435	1.00[EUR][1000 genomes]
rs9989834	1.00[YRI][hapmap]

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	nsv997274	chr2:142760393-143599193	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	11 gene(s)	inside rSNPs	diseases
2	nsv526107	chr2:142768518-142884248	Enhancers Weak transcription Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
3	nsv875254	chr2:142833327-142931146	Bivalent/Poised TSS Active TSS Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	nsv1006247	chr2:142851056-143289465	Weak transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:11 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr2:142857400-142862800	Enhancers	Cortex derived primary cultured neurospheres	brain
2	chr2:142857800-142859000	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
3	chr2:142857800-142860000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
4	chr2:142857800-142860000	Enhancers	Brain Anterior Caudate	brain
5	chr2:142857800-142860000	Enhancers	Brain Substantia Nigra	brain
6	chr2:142858000-142861200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
7	chr2:142858200-142859000	Enhancers	Brain Inferior Temporal Lobe	brain
8	chr2:142858400-142859000	Enhancers	HMEC	breast
9	chr2:142858400-142859200	Enhancers	Brain Hippocampus Middle	brain
10	chr2:142858800-142861400	Weak transcription	Brain Germinal Matrix	brain
11	chr2:142858800-142861600	Weak transcription	Hela-S3	cervix

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Input of quick search could be:

dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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