Variant report

Variant	rs10885079
Chromosome Location	chr10:112797803-112797804
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 33 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs10444029	0.95[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs10885062	0.82[EUR][1000 genomes]
rs10885063	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10885066	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10885067	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10885068	0.82[CEU][hapmap];0.93[CHB][hapmap];0.88[JPT][hapmap];0.88[YRI][hapmap];0.85[ASN][1000 genomes]
rs10885070	0.82[CEU][hapmap];0.87[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.83[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10885074	0.93[MKK][hapmap];0.83[YRI][hapmap]
rs11195360	0.88[CHD][hapmap];0.97[TSI][hapmap]
rs11195382	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs11195400	0.85[ASW][hapmap];0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[JPT][hapmap];0.91[MEX][hapmap];0.93[MKK][hapmap];0.95[TSI][hapmap];0.83[YRI][hapmap];0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs11195406	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs12416020	1.00[CEU][hapmap];0.94[CHB][hapmap];0.88[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs1327551	0.82[CEU][hapmap];1.00[CHB][hapmap];0.83[JPT][hapmap];0.82[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1327555	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1407696	0.90[CHD][hapmap];0.95[TSI][hapmap]
rs1800544	0.89[EUR][1000 genomes]
rs4335469	0.82[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4597005	0.93[CHB][hapmap];0.83[JPT][hapmap];0.93[YRI][hapmap];0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs4918612	0.84[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs4918613	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.83[JPT][hapmap];0.94[TSI][hapmap];0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs4918614	0.93[CHB][hapmap];0.88[JPT][hapmap];0.83[ASN][1000 genomes]
rs521674	0.95[CEU][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.82[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs602618	0.81[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs638019	0.81[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7079511	0.82[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.88[JPT][hapmap];1.00[TSI][hapmap];0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7901832	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7904892	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7909407	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs7915073	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7915214	0.81[CHB][hapmap];0.83[EUR][1000 genomes];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	nsv831985	chr10:112652089-112803103	Enhancers Flanking Active TSS Weak transcription Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	28 gene(s)	inside rSNPs	diseases
2	nsv498045	chr10:112794518-113353550	Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Weak transcription Bivalent/Poised TSS Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10885079	XPNPEP1	cis	cerebellum	SCAN
rs10885079	CLIC5	trans	cerebellum	SCAN

Chromatin state (count:4 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:112770800-112798800	Weak transcription	HMEC	breast
2	chr10:112783400-112801400	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr10:112792800-112800400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr10:112797600-112798400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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