Variant report

Variant	rs17302608
Chromosome Location	chr15:59990506-59990507
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:59988556..59990792-chr15:60017317..60018818,2	K562	blood:
2	chr15:59986007..59987827-chr15:59988230..59990878,2	MCF-7	breast:
3	chr15:59980286..59983504-chr15:59984854..59993428,11	K562	blood:
4	chr15:59990164..59992393-chr15:60002065..60004419,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000140299	Chromatin interaction
ENSG00000259238	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs12050786	0.90[EUR][1000 genomes]
rs12161947	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12161992	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs12161993	0.93[CHB][hapmap];0.93[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs16941544	0.83[JPT][hapmap]
rs17236713	0.93[GIH][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs17236734	0.83[JPT][hapmap];0.85[EUR][1000 genomes]
rs17302448	0.93[GIH][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs2306359	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs28395445	0.90[EUR][1000 genomes]
rs28418513	0.85[EUR][1000 genomes]
rs28422085	0.85[EUR][1000 genomes]
rs28437066	0.85[EUR][1000 genomes]
rs28642859	0.85[EUR][1000 genomes]
rs28654927	0.90[EUR][1000 genomes]
rs28883924	0.90[EUR][1000 genomes]
rs2899650	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4775192	0.83[JPT][hapmap];0.85[EUR][1000 genomes]
rs4775193	0.97[GIH][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.85[EUR][1000 genomes]
rs4775198	0.90[EUR][1000 genomes]
rs6151443	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.88[YRI][hapmap];0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs6151457	0.94[CHB][hapmap];0.88[JPT][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6151492	0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6151497	1.00[ASW][hapmap];0.89[CHB][hapmap];0.83[CHD][hapmap];0.97[GIH][hapmap];0.83[JPT][hapmap];0.93[MEX][hapmap];1.00[TSI][hapmap];0.85[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6151505	0.82[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs6151522	0.90[EUR][1000 genomes]
rs6151534	0.81[CHB][hapmap];0.88[JPT][hapmap];0.90[EUR][1000 genomes]
rs6151538	0.90[EUR][1000 genomes]
rs6151540	0.90[EUR][1000 genomes]
rs6151567	0.83[JPT][hapmap];0.85[EUR][1000 genomes]
rs6151575	0.85[EUR][1000 genomes]
rs6151591	0.82[JPT][hapmap];0.85[EUR][1000 genomes]
rs8026404	0.88[YRI][hapmap]
rs8033208	0.81[CHB][hapmap]

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	nsv527307	chr15:59103328-60018487	Enhancers Genic enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	145 gene(s)	inside rSNPs	diseases
2	nsv533240	chr15:59858093-59998176	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 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	chr15:59988800-59992200	Weak transcription	Stomach Mucosa	stomach
2	chr15:59989000-59992200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
3	chr15:59989000-59994000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
4	chr15:59989000-59994000	Weak transcription	K562	blood
5	chr15:59989800-59992000	Enhancers	A549	lung
6	chr15:59989800-59995000	Enhancers	NHEK	skin
7	chr15:59989800-59998400	Enhancers	Hela-S3	cervix
8	chr15:59990200-59992200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
9	chr15:59990400-59991600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr15:59990400-59992200	Weak transcription	HMEC	breast

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