Variant report

Variant	rs1017165
Chromosome Location	chr20:15538292-15538293
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:13)

rs_ID	r²[population]
rs1035178	1.00[CEU][hapmap];0.89[CHB][hapmap];0.88[JPT][hapmap];0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1233732	1.00[GIH][hapmap];0.89[JPT][hapmap];1.00[TSI][hapmap]
rs1233741	1.00[CEU][hapmap];0.80[EUR][1000 genomes]
rs16995959	1.00[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes]
rs6043363	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap];0.81[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6074913	1.00[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap]
rs6074914	1.00[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap]
rs6074916	1.00[GIH][hapmap];0.89[JPT][hapmap];0.88[TSI][hapmap]
rs6079871	1.00[CEU][hapmap]
rs6079873	1.00[JPT][hapmap]
rs6079874	0.89[JPT][hapmap]
rs62195614	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs62195615	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1062252	chr20:14964258-15547739	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
2	nsv544206	chr20:14964258-15547739	Enhancers ZNF genes & repeats Active TSS Weak transcription Flanking Active TSS Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv869328	chr20:15325423-16213898	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
4	esv2751909	chr20:15489871-15656007	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region Chromatin interactive region lncRNA	3 gene(s)	inside rSNPs	diseases
5	nsv962630	chr20:15535832-15538767	Weak transcription Enhancers	TF binding region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:8 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr20:15533400-15541600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
2	chr20:15533800-15541600	Weak transcription	Fetal Brain Male	brain
3	chr20:15536600-15538400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
4	chr20:15537000-15541200	Weak transcription	Fetal Stomach	stomach
5	chr20:15537800-15541600	Weak transcription	Rectal Smooth Muscle	rectum
6	chr20:15538200-15538400	Enhancers	Colon Smooth Muscle	Colon
7	chr20:15538200-15538400	Enhancers	Stomach Smooth Muscle	stomach
8	chr20:15538200-15538800	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

Quick Search:

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

what's new

Quick links