Variant report

Variant	rs11238739
Chromosome Location	chr10:44340493-44340494
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	GATA3	chr10:44340210-44340514	SH-SY5Y	brain:	n/a	n/a

Variant related genes	Relation type
LINC00619	TF binding region

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs10793503	0.85[AFR][1000 genomes];0.82[AMR][1000 genomes]
rs10899921	0.94[EUR][1000 genomes]
rs10899922	0.99[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10899929	0.94[ASN][1000 genomes]
rs10899937	0.87[ASN][1000 genomes]
rs10899945	0.81[ASN][1000 genomes]
rs11238736	0.90[EUR][1000 genomes]
rs11238737	0.94[EUR][1000 genomes]
rs11238738	0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs11238741	0.83[AMR][1000 genomes];0.98[ASN][1000 genomes]
rs11238766	0.81[ASN][1000 genomes]
rs12357341	0.93[EUR][1000 genomes]
rs17465611	0.90[ASN][1000 genomes]
rs1870636	0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4948781	0.80[AFR][1000 genomes]
rs4948784	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4948785	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs729247	0.80[AFR][1000 genomes]
rs748715	0.95[AMR][1000 genomes];0.90[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912804	0.80[AFR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11238739	LINC00840	cis	lung	GTEx

Chromatin state (count:39 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44337400-44342400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr10:44338200-44340600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:44338200-44341200	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
4	chr10:44338200-44341800	Enhancers	Osteobl	bone
5	chr10:44338200-44342200	Enhancers	Left Ventricle	heart
6	chr10:44338200-44342800	Enhancers	NHLF	lung
7	chr10:44338400-44342800	Enhancers	Fetal Muscle Leg	muscle
8	chr10:44338600-44340600	Weak transcription	Gastric	stomach
9	chr10:44338600-44341000	Enhancers	Skeletal Muscle Male	skeletal muscle
10	chr10:44338800-44340600	Weak transcription	Right Atrium	heart
11	chr10:44338800-44342200	Enhancers	HSMMtube	muscle
12	chr10:44339000-44340600	Weak transcription	Skeletal Muscle Female	skeletal muscle
13	chr10:44339200-44340600	Weak transcription	Fetal Muscle Trunk	muscle
14	chr10:44339200-44340600	Weak transcription	Ovary	ovary
15	chr10:44339200-44340600	Weak transcription	Spleen	Spleen
16	chr10:44339200-44340800	Enhancers	Fetal Heart	heart
17	chr10:44339200-44341800	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr10:44339200-44341800	Weak transcription	Colonic Mucosa	Colon
19	chr10:44339200-44342800	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr10:44339200-44349400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr10:44339400-44340600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr10:44339400-44341400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
23	chr10:44339400-44341600	Weak transcription	Fetal Lung	lung
24	chr10:44339400-44342800	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr10:44339400-44342800	Enhancers	NHDF-Ad	bronchial
26	chr10:44339600-44340600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
27	chr10:44339800-44341000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
28	chr10:44339800-44341200	Enhancers	Esophagus	oesophagus
29	chr10:44339800-44342200	Enhancers	Lung	lung
30	chr10:44339800-44342400	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
31	chr10:44340000-44340800	Enhancers	Muscle Satellite Cultured Cells	--
32	chr10:44340000-44340800	Enhancers	Aorta	Aorta
33	chr10:44340000-44341800	Weak transcription	Fetal Stomach	stomach
34	chr10:44340200-44340600	Weak transcription	Adipose Nuclei	Adipose
35	chr10:44340200-44340600	Weak transcription	HSMM	muscle
36	chr10:44340200-44340800	Enhancers	Stomach Smooth Muscle	stomach
37	chr10:44340200-44341000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
38	chr10:44340400-44340600	Enhancers	Primary T helper cells fromperipheralblood	blood
39	chr10:44340400-44341200	Enhancers	Stomach Mucosa	stomach

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