Variant report

Variant	rs7893279
Chromosome Location	chr10:18745105-18745106
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 39 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs10734052	1.00[CHB][hapmap]
rs10741058	0.94[TSI][hapmap]
rs10741061	0.94[TSI][hapmap]
rs10764483	0.94[TSI][hapmap]
rs10828679	1.00[CHB][hapmap];0.94[TSI][hapmap]
rs11014125	1.00[CHB][hapmap]
rs11014196	1.00[CHB][hapmap]
rs11595529	0.88[JPT][hapmap]
rs11596252	0.84[ASN][1000 genomes]
rs11598027	0.88[JPT][hapmap]
rs12766343	0.88[JPT][hapmap]
rs12767311	0.88[JPT][hapmap]
rs12774837	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12784686	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1325989	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1409202	0.88[JPT][hapmap]
rs1409203	0.88[JPT][hapmap]
rs1409204	0.88[JPT][hapmap]
rs1575835	1.00[CHB][hapmap]
rs1575836	1.00[CHB][hapmap];0.94[TSI][hapmap]
rs1926026	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[TSI][hapmap]
rs1998820	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.92[MKK][hapmap];1.00[TSI][hapmap];1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1998821	1.00[AFR][1000 genomes];0.94[AMR][1000 genomes];0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2209589	1.00[CHB][hapmap]
rs4748465	1.00[CHB][hapmap]
rs4748466	1.00[CEU][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs4748467	0.81[EUR][1000 genomes]
rs4748468	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.92[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6482397	1.00[CHB][hapmap]
rs6482406	1.00[CHB][hapmap]
rs7077248	1.00[CHB][hapmap];0.94[TSI][hapmap]
rs7893853	0.88[JPT][hapmap]
rs7912753	1.00[CHB][hapmap]
rs7923938	1.00[CEU][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];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs912983	0.96[AFR][1000 genomes];0.98[AMR][1000 genomes];0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs982003	1.00[CHB][hapmap]
rs983048	1.00[CHB][hapmap]
rs997264	1.00[CHB][hapmap];0.94[TSI][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv550042	chr10:18683267-18994583	ZNF genes & repeats Weak transcription Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases

Variant related diseases (count:1)

Disease	PMID	Source
Schizophrenia	25056061	GWAS catalog

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs7893279	ARL5B	Cis_1M	lymphoblastoid	RTeQTL
rs7893279	STAM	cis	parietal	SCAN

Chromatin state (count:13 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:18732400-18801600	Weak transcription	Pancreas	Pancrea
2	chr10:18739000-18752600	Weak transcription	Right Atrium	heart
3	chr10:18739000-18761000	Weak transcription	Colon Smooth Muscle	Colon
4	chr10:18739800-18745400	Weak transcription	Left Ventricle	heart
5	chr10:18741600-18763200	Weak transcription	Fetal Stomach	stomach
6	chr10:18743400-18745200	Enhancers	Fetal Adrenal Gland	Adrenal Gland
7	chr10:18743400-18746200	Enhancers	Dnd41	blood
8	chr10:18743800-18745400	Enhancers	Placenta	Placenta
9	chr10:18744400-18761800	Weak transcription	Ovary	ovary
10	chr10:18744600-18746400	Enhancers	Fetal Heart	heart
11	chr10:18744800-18745400	Enhancers	Right Ventricle	heart
12	chr10:18744800-18745600	Enhancers	Primary B cells from cord blood	blood
13	chr10:18745000-18745800	Strong transcription	Cortex derived primary cultured neurospheres	brain

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