Variant report

Variant	rs5762853
Chromosome Location	chr22:29245231-29245232
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 66 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:64)

rs_ID	r²[population]
rs12165962	0.95[CHB][hapmap];0.95[JPT][hapmap]
rs12628211	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs132531	0.89[JPT][hapmap]
rs132533	0.84[JPT][hapmap]
rs132536	0.84[JPT][hapmap]
rs132548	0.89[JPT][hapmap]
rs2064261	0.89[JPT][hapmap]
rs2097461	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2213645	0.84[JPT][hapmap]
rs2239815	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2269577	0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs2347447	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs2881635	0.83[ASN][1000 genomes]
rs35259224	0.87[ASN][1000 genomes]
rs3788409	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs469990	0.89[JPT][hapmap]
rs469991	0.84[JPT][hapmap]
rs4822998	0.82[JPT][hapmap]
rs5752795	0.83[ASN][1000 genomes]
rs5752797	0.81[CEU][hapmap]
rs5752798	0.83[ASN][1000 genomes]
rs5752804	0.83[ASN][1000 genomes]
rs5752807	0.87[ASN][1000 genomes]
rs5752809	0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs5752812	0.95[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs5752813	0.85[ASN][1000 genomes]
rs5762784	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs5762788	0.95[CHB][hapmap];1.00[JPT][hapmap];0.82[ASN][1000 genomes]
rs5762795	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs5762799	0.81[CEU][hapmap]
rs5762803	0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs5762815	0.85[ASN][1000 genomes]
rs5762824	0.87[ASN][1000 genomes]
rs5762825	0.87[ASN][1000 genomes]
rs5762839	0.80[CEU][hapmap]
rs5762854	0.97[ASN][1000 genomes]
rs5762859	0.85[AMR][1000 genomes];0.82[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs5762861	0.80[EUR][1000 genomes]
rs5762862	0.80[EUR][1000 genomes]
rs5762863	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5762864	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs5762867	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs5762874	0.84[JPT][hapmap]
rs5762881	0.84[JPT][hapmap]
rs5762882	0.84[JPT][hapmap]
rs5762936	0.84[JPT][hapmap]
rs5997408	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs6005867	0.83[ASN][1000 genomes]
rs6005872	0.83[ASN][1000 genomes]
rs6005881	0.95[CHB][hapmap];1.00[JPT][hapmap];0.83[ASN][1000 genomes]
rs6005892	0.83[ASN][1000 genomes]
rs6005915	0.95[CEU][hapmap];0.91[CHB][hapmap];0.95[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs6005916	0.87[ASN][1000 genomes]
rs6005927	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6005929	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6519766	0.89[JPT][hapmap]
rs7287124	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7287806	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs7287918	0.89[JPT][hapmap]
rs763073	0.95[CHB][hapmap];1.00[JPT][hapmap];0.85[ASN][1000 genomes]
rs8137969	0.87[ASN][1000 genomes]
rs9620841	0.89[JPT][hapmap]
rs9625588	0.87[ASN][1000 genomes]
rs9625619	0.84[JPT][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	nsv1064079	chr22:29065528-29456059	Weak transcription Strong transcription Genic enhancers Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	92 gene(s)	inside rSNPs	diseases
2	nsv834169	chr22:29095446-29303929	Weak transcription Active TSS Flanking Active TSS Genic enhancers Strong transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs5762853	XBP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:5 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29226000-29248800	Weak transcription	Primary T cells from cord blood	blood
2	chr22:29234000-29251600	Weak transcription	Fetal Lung	lung
3	chr22:29243200-29249800	Weak transcription	Stomach Smooth Muscle	stomach
4	chr22:29244800-29251400	Weak transcription	Fetal Intestine Small	intestine
5	chr22:29244800-29251800	Weak transcription	Fetal Stomach	stomach

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