Variant report

Variant	rs1009771
Chromosome Location	chr10:44361106-44361107
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 34 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1008803	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1009769	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1009770	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899923	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10899925	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899927	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899928	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10899929	0.85[EUR][1000 genomes]
rs10899932	0.81[EUR][1000 genomes]
rs10899944	0.81[EUR][1000 genomes]
rs11238741	0.85[EUR][1000 genomes]
rs11238749	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11238750	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11238753	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11238754	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11238755	0.85[EUR][1000 genomes]
rs11238756	0.90[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11238759	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11238761	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs11238764	0.80[EUR][1000 genomes]
rs12359360	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1468061	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17464560	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2031513	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs2169200	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4948580	0.93[EUR][1000 genomes]
rs4948581	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4948786	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs56034709	0.80[EUR][1000 genomes]
rs7903927	0.95[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7909314	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs881714	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs912805	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9633744	0.99[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs1009771	LINC00840	cis	lung	GTEx

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44356800-44361200	Enhancers	NHDF-Ad	bronchial
2	chr10:44357800-44361600	Enhancers	Right Atrium	heart
3	chr10:44357800-44367200	Enhancers	Left Ventricle	heart
4	chr10:44358200-44361200	Enhancers	Foreskin Fibroblast Primary Cells skin02	Skin
5	chr10:44358400-44361400	Enhancers	Gastric	stomach
6	chr10:44358400-44361600	Enhancers	Right Ventricle	heart
7	chr10:44358400-44362200	Enhancers	Skeletal Muscle Female	skeletal muscle
8	chr10:44358800-44361400	Enhancers	Breast Myoepithelial Primary Cells	Breast
9	chr10:44359200-44361800	Enhancers	Fetal Heart	heart
10	chr10:44359400-44361400	Enhancers	Ovary	ovary
11	chr10:44359600-44361400	Enhancers	Spleen	Spleen
12	chr10:44359800-44366400	Weak transcription	Lung	lung
13	chr10:44360000-44361400	Bivalent Enhancer	Foreskin Melanocyte Primary Cells skin01	Skin
14	chr10:44360000-44362200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr10:44360000-44362400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr10:44360000-44362400	Weak transcription	Brain Cingulate Gyrus	brain
17	chr10:44360000-44362600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
18	chr10:44360000-44362800	Weak transcription	Osteobl	bone
19	chr10:44360000-44363000	Weak transcription	Placenta Amnion	Placenta Amnion
20	chr10:44360000-44363600	Enhancers	HepG2	liver
21	chr10:44360000-44363800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
22	chr10:44360000-44392200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr10:44360200-44361200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
24	chr10:44360200-44361200	Enhancers	Fetal Lung	lung
25	chr10:44360200-44362800	Weak transcription	HSMM	muscle
26	chr10:44360200-44363800	Weak transcription	Hela-S3	cervix
27	chr10:44360400-44362400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
28	chr10:44360400-44362600	Weak transcription	NHLF	lung
29	chr10:44360400-44366400	Weak transcription	Brain Hippocampus Middle	brain
30	chr10:44360600-44362400	Weak transcription	Adipose Nuclei	Adipose
31	chr10:44360800-44361200	Enhancers	Fetal Kidney	kidney
32	chr10:44361000-44361200	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr10:44361000-44361200	Bivalent Enhancer	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr10:44361000-44361200	Bivalent Enhancer	Fetal Adrenal Gland	Adrenal Gland
35	chr10:44361000-44361200	Enhancers	Fetal Stomach	stomach
36	chr10:44361000-44361200	Enhancers	Skeletal Muscle Male	skeletal muscle
37	chr10:44361000-44361400	Enhancers	Stomach Smooth Muscle	stomach
38	chr10:44361000-44362400	Weak transcription	HUVEC	blood vessel
39	chr10:44361000-44362600	Weak transcription	Muscle Satellite Cultured Cells	--

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