Variant report

Variant	rs17646258
Chromosome Location	chr3:116038249-116038250
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:17)

rs_ID	r²[population]
rs12491423	1.00[JPT][hapmap]
rs1541871	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1619655	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]
rs1835674	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1920185	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.87[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1920189	0.87[EUR][1000 genomes]
rs2163504	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes]
rs28504104	0.88[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4521220	0.93[EUR][1000 genomes]
rs6785974	1.00[CEU][hapmap];0.89[EUR][1000 genomes]
rs724115	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[EUR][1000 genomes]
rs7627104	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes]
rs7648197	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[EUR][1000 genomes]
rs9845203	1.00[CHB][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9852860	0.93[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.94[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs9856796	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs988803	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv877361	chr3:116017931-116138039	Weak transcription Enhancers Active TSS ZNF genes & repeats Flanking Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr3:116032600-116040000	Weak transcription	Brain Cingulate Gyrus	brain
2	chr3:116036200-116041400	Weak transcription	Colon Smooth Muscle	Colon
3	chr3:116037200-116038400	Enhancers	iPS-15b Cell Line	embryonic stem cell
4	chr3:116037200-116038400	Enhancers	Brain Angular Gyrus	brain
5	chr3:116037200-116038600	Enhancers	Brain Hippocampus Middle	brain
6	chr3:116037600-116039000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
7	chr3:116037800-116038600	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr3:116037800-116038600	Enhancers	iPS-20b Cell Line	embryonic stem cell
9	chr3:116038000-116038600	Enhancers	Brain Anterior Caudate	brain
10	chr3:116038000-116038600	Active TSS	Pancreatic Islets	Pancreatic Islet
11	chr3:116038200-116038600	Enhancers	ES-I3 Cell Line	embryonic stem cell
12	chr3:116038200-116038600	Enhancers	Brain Inferior Temporal Lobe	brain

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

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