Variant report

Variant	rs13140015
Chromosome Location	chr4:26985290-26985291
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr4:26980677..26982760-chr4:26983877..26985383,2	K562	blood:

Extended variants
information (count: 24 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:20)

rs_ID	r²[population]
rs10007132	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10019691	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs1012550	0.94[ASN][1000 genomes]
rs10939143	0.82[EUR][1000 genomes]
rs10939147	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12331378	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs13115054	0.82[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs16878653	0.86[ASN][1000 genomes]
rs16878671	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28570016	0.86[EUR][1000 genomes]
rs28572642	0.80[ASN][1000 genomes]
rs2871256	0.82[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs4692136	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6830950	0.89[AFR][1000 genomes];0.80[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6833149	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6855865	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs6856381	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs7679403	0.87[EUR][1000 genomes]
rs7695335	0.89[AFR][1000 genomes];0.82[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs9998009	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv470021	chr4:26721578-27067027	Active TSS Strong transcription Enhancers Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv461312	chr4:26844674-27078376	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Strong transcription ZNF genes & repeats Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
3	nsv593872	chr4:26844674-27078376	Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
4	nsv1000568	chr4:26886920-27049554	Strong transcription Weak transcription Enhancers Active TSS ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs13140015	STIM2	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:46 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:26961800-26994000	Weak transcription	Monocytes-CD14+_RO01746	blood
2	chr4:26963600-26994200	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:26966600-26986400	Weak transcription	HSMM	muscle
4	chr4:26966600-26989000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr4:26966600-26994600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
6	chr4:26966800-26986400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
7	chr4:26967600-26986400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
8	chr4:26975800-27003200	Weak transcription	Aorta	Aorta
9	chr4:26977800-26988600	Weak transcription	Fetal Thymus	thymus
10	chr4:26978000-26987400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
11	chr4:26978000-26994600	Weak transcription	Fetal Stomach	stomach
12	chr4:26978400-27019200	Weak transcription	Fetal Intestine Small	intestine
13	chr4:26978800-26988600	Weak transcription	Fetal Muscle Leg	muscle
14	chr4:26979600-26988600	Weak transcription	Thymus	Thymus
15	chr4:26980400-26988600	Weak transcription	Ovary	ovary
16	chr4:26980400-26994800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
17	chr4:26980400-27019400	Weak transcription	Left Ventricle	heart
18	chr4:26980600-26986000	Weak transcription	Psoas Muscle	Psoas
19	chr4:26980600-26986600	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr4:26980600-26986600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
21	chr4:26980800-26985800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
22	chr4:26980800-26985800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
23	chr4:26981200-26985800	Weak transcription	Primary T cells from cord blood	blood
24	chr4:26981200-26986600	Weak transcription	Primary B cells from peripheral blood	blood
25	chr4:26981200-26986600	Weak transcription	GM12878-XiMat	blood
26	chr4:26983400-26986600	Weak transcription	Primary hematopoietic stem cells	blood
27	chr4:26984000-26986200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr4:26984200-26985800	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
29	chr4:26984400-26986600	Weak transcription	Primary B cells from cord blood	blood
30	chr4:26984600-26985400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr4:26984600-26985400	Enhancers	Brain Cingulate Gyrus	brain
32	chr4:26984600-26985400	Enhancers	Brain Inferior Temporal Lobe	brain
33	chr4:26984600-26989000	Enhancers	Cortex derived primary cultured neurospheres	brain
34	chr4:26984800-26986200	Weak transcription	Small Intestine	intestine
35	chr4:26984800-26988800	Weak transcription	Pancreas	Pancrea
36	chr4:26984800-26989000	Weak transcription	HepG2	liver
37	chr4:26984800-26989400	Enhancers	Primary T helper cells fromperipheralblood	blood
38	chr4:26984800-26993400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
39	chr4:26984800-26993400	Weak transcription	Brain Hippocampus Middle	brain
40	chr4:26985000-26985400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
41	chr4:26985000-26987600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
42	chr4:26985200-26985800	Enhancers	Fetal Lung	lung
43	chr4:26985200-26986000	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
44	chr4:26985200-26986000	Enhancers	Muscle Satellite Cultured Cells	--
45	chr4:26985200-26986200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
46	chr4:26985200-26987600	Enhancers	Primary T helper cells PMA-I stimulated	--

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