Variant report

Variant	rs11117642
Chromosome Location	chr1:216825225-216825226
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 12 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs11117643	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11117656	0.86[CEU][hapmap];0.90[CHB][hapmap];0.83[YRI][hapmap];0.87[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12027901	1.00[CEU][hapmap];0.86[CHB][hapmap];1.00[GIH][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs12028510	0.86[CEU][hapmap];0.86[CHB][hapmap];0.94[GIH][hapmap];0.95[MEX][hapmap];0.85[TSI][hapmap];0.89[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12754372	0.85[CHB][hapmap];0.89[GIH][hapmap];0.83[MEX][hapmap];0.90[MKK][hapmap]
rs1498278	1.00[CEU][hapmap];0.85[CHB][hapmap];0.81[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs17043350	0.89[GIH][hapmap];0.91[MEX][hapmap];0.87[MKK][hapmap];0.81[AMR][1000 genomes]
rs4846616	0.87[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.80[LWK][hapmap];0.89[TSI][hapmap];0.83[YRI][hapmap];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4846617	1.00[CEU][hapmap];0.85[CHB][hapmap];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs4846644	0.81[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1003815	chr1:216504235-216836498	Active TSS Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases
2	nsv535289	chr1:216504235-216836498	Enhancers Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region	4 gene(s)	inside rSNPs	diseases

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:216775200-216835400	Weak transcription	Fetal Intestine Small	intestine
2	chr1:216787400-216853800	Weak transcription	Pancreas	Pancrea
3	chr1:216800000-216826200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
4	chr1:216800200-216826600	Weak transcription	Left Ventricle	heart
5	chr1:216814000-216856200	Weak transcription	Psoas Muscle	Psoas
6	chr1:216818600-216835000	Weak transcription	Fetal Intestine Large	intestine
7	chr1:216820400-216855400	Weak transcription	Fetal Heart	heart
8	chr1:216824800-216825800	Enhancers	iPS-15b Cell Line	embryonic stem cell
9	chr1:216825000-216825600	Enhancers	Placenta	Placenta
10	chr1:216825200-216826000	Enhancers	Pancreatic Islets	Pancreatic Islet

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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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