Variant report

Variant	rs12628211
Chromosome Location	chr22:29239250-29239251
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 47 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs2097461	0.94[ASN][1000 genomes]
rs2239815	0.96[ASN][1000 genomes]
rs2269577	0.96[ASN][1000 genomes]
rs2347447	0.94[ASN][1000 genomes]
rs2881635	0.81[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs35259224	0.98[ASN][1000 genomes]
rs3788409	0.96[ASN][1000 genomes]
rs5752795	0.94[ASN][1000 genomes]
rs5752798	0.94[ASN][1000 genomes]
rs5752801	0.83[ASN][1000 genomes]
rs5752804	0.94[ASN][1000 genomes]
rs5752807	0.98[ASN][1000 genomes]
rs5752809	0.98[ASN][1000 genomes]
rs5752812	0.98[ASN][1000 genomes]
rs5752813	0.96[ASN][1000 genomes]
rs5762784	0.93[ASN][1000 genomes]
rs5762788	0.94[ASN][1000 genomes]
rs5762795	0.94[ASN][1000 genomes]
rs5762803	0.88[AMR][1000 genomes];0.85[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs5762815	0.96[ASN][1000 genomes]
rs5762824	0.98[ASN][1000 genomes]
rs5762825	0.98[ASN][1000 genomes]
rs5762853	0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs5762854	0.86[ASN][1000 genomes]
rs5762859	0.81[AMR][1000 genomes];0.82[ASN][1000 genomes]
rs5762863	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs5762864	0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs5762867	0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs5997408	0.96[ASN][1000 genomes]
rs6005867	0.94[ASN][1000 genomes]
rs6005869	0.87[ASN][1000 genomes]
rs6005872	0.94[ASN][1000 genomes]
rs6005881	0.94[ASN][1000 genomes]
rs6005892	0.94[ASN][1000 genomes]
rs6005915	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6005916	0.82[AMR][1000 genomes];0.99[ASN][1000 genomes]
rs6005927	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs6005929	0.86[AMR][1000 genomes];0.94[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs7287124	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7287806	0.96[ASN][1000 genomes]
rs763073	0.96[ASN][1000 genomes]
rs8137969	0.98[ASN][1000 genomes]
rs9625566	0.90[ASN][1000 genomes]
rs9625588	0.98[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	nsv979608	chr22:29233930-29240181	Weak transcription Enhancers Strong transcription	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	n/a

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12628211	XBP1	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:29214800-29242200	Weak transcription	Aorta	Aorta
2	chr22:29225400-29242000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
3	chr22:29226000-29248800	Weak transcription	Primary T cells from cord blood	blood
4	chr22:29226200-29239600	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr22:29226200-29242800	Weak transcription	Stomach Smooth Muscle	stomach
6	chr22:29226600-29241800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
7	chr22:29226600-29242200	Weak transcription	Fetal Muscle Leg	muscle
8	chr22:29229400-29241800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
9	chr22:29234000-29251600	Weak transcription	Fetal Lung	lung
10	chr22:29235200-29243200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
11	chr22:29237800-29240000	Weak transcription	Primary monocytes fromperipheralblood	blood
12	chr22:29237800-29240600	Weak transcription	Primary neutrophils fromperipheralblood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links