Variant report

Variant	rs6005927
Chromosome Location	chr22:29255884-29255885
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 43 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:40)

rs_ID	r²[population]
rs10222249	0.80[EUR][1000 genomes]
rs12628211	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs2239815	0.82[ASN][1000 genomes]
rs2269577	0.82[ASN][1000 genomes]
rs2347447	0.81[ASN][1000 genomes]
rs2881635	0.80[ASN][1000 genomes]
rs35259224	0.84[ASN][1000 genomes]
rs3788409	0.82[ASN][1000 genomes]
rs5752795	0.81[ASN][1000 genomes]
rs5752798	0.81[ASN][1000 genomes]
rs5752804	0.83[ASN][1000 genomes]
rs5752807	0.84[ASN][1000 genomes]
rs5752809	0.84[ASN][1000 genomes]
rs5752812	0.84[ASN][1000 genomes]
rs5752813	0.82[ASN][1000 genomes]
rs5762795	0.81[ASN][1000 genomes]
rs5762803	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs5762815	0.83[ASN][1000 genomes]
rs5762824	0.84[ASN][1000 genomes]
rs5762825	0.84[ASN][1000 genomes]
rs5762853	0.91[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5762854	0.93[AFR][1000 genomes];0.82[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs5762859	0.90[AFR][1000 genomes];0.89[AMR][1000 genomes];0.82[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs5762863	0.99[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5762864	0.98[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs5762865	0.80[ASN][1000 genomes]
rs5762867	0.87[AFR][1000 genomes];0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs5997408	0.83[ASN][1000 genomes]
rs6005867	0.81[ASN][1000 genomes]
rs6005872	0.81[ASN][1000 genomes]
rs6005881	0.81[ASN][1000 genomes]
rs6005915	0.83[EUR][1000 genomes]
rs6005916	0.85[ASN][1000 genomes]
rs6005929	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6005930	0.94[AFR][1000 genomes]
rs7287124	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7287806	0.83[ASN][1000 genomes]
rs763073	0.83[ASN][1000 genomes]
rs8137969	0.84[ASN][1000 genomes]
rs9625588	0.84[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 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
3	nsv531586	chr22:29252132-29902266	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6005927	XBP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:3 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29252400-29261000	Weak transcription	Fetal Intestine Small	intestine
2	chr22:29253600-29258800	Weak transcription	HepG2	liver
3	chr22:29255600-29260200	Weak transcription	Liver	Liver

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