Variant report

Variant	rs17161652
Chromosome Location	chr7:98891527-98891528
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	POLR2A	chr7:98890111-98895513	K562	blood:	n/a	n/a

Variant related genes	Relation type
MYH16	TF binding region

Extended variants
information (count: 36 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1002172	0.94[ASN][1000 genomes]
rs1004387	1.00[CEU][hapmap]
rs10267346	0.82[ASN][1000 genomes]
rs10272998	0.85[JPT][hapmap]
rs10464604	0.92[EUR][1000 genomes]
rs10953286	0.81[CHB][hapmap];0.81[CHD][hapmap];0.89[JPT][hapmap]
rs11539770	0.92[EUR][1000 genomes]
rs13230554	1.00[CEU][hapmap]
rs17161677	1.00[CEU][hapmap];0.95[CHB][hapmap];0.86[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17161692	0.88[GIH][hapmap];0.85[JPT][hapmap]
rs17161698	1.00[CEU][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs1985453	0.96[GIH][hapmap];0.92[EUR][1000 genomes]
rs2057906	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs2074652	0.81[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2107705	0.92[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs2240385	1.00[CEU][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs2269985	1.00[CEU][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs2286162	0.85[JPT][hapmap]
rs2301889	0.88[GIH][hapmap];0.85[JPT][hapmap]
rs2404322	0.92[EUR][1000 genomes]
rs3764815	1.00[CEU][hapmap];0.96[GIH][hapmap];0.83[JPT][hapmap];1.00[TSI][hapmap];0.92[EUR][1000 genomes]
rs3801288	0.84[JPT][hapmap]
rs45492098	0.92[EUR][1000 genomes]
rs45540134	0.92[EUR][1000 genomes]
rs45622743	0.92[EUR][1000 genomes]
rs58222677	0.92[EUR][1000 genomes]
rs58421977	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs58999322	0.97[ASN][1000 genomes]
rs59986060	0.92[EUR][1000 genomes]
rs61159815	0.92[EUR][1000 genomes]
rs73709637	0.92[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs73709641	0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs940336	1.00[CEU][hapmap];0.92[EUR][1000 genomes]
rs9768020	0.82[ASN][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	esv3433144	chr7:98777878-99060209	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	62 gene(s)	inside rSNPs	diseases
2	nsv831068	chr7:98819572-99006481	Weak transcription Active TSS Genic enhancers Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	48 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs17161652	AZGP1	cis	brain	seeQTL

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:98860600-98892800	Weak transcription	Right Atrium	heart
2	chr7:98865400-98899200	Weak transcription	Spleen	Spleen
3	chr7:98873200-98905800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
4	chr7:98874800-98906800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
5	chr7:98881200-98899000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
6	chr7:98890000-98894400	Weak transcription	Lung	lung
7	chr7:98890400-98894200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
8	chr7:98890800-98892000	Enhancers	HepG2	liver
9	chr7:98890800-98905800	Weak transcription	Pancreas	Pancrea
10	chr7:98891400-98891800	Enhancers	Stomach Mucosa	stomach
11	chr7:98891400-98892000	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links