Variant report

Variant	rs881714
Chromosome Location	chr10:44353871-44353872
allele	G/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	EP300	chr10:44351826-44355116	SK-N-SH	brain:	n/a	chr10:44352564-44352578 chr10:44354237-44354244 chr10:44353450-44353460 chr10:44353197-44353206 chr10:44354688-44354702

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44351789..44354047-chr10:44357316..44359324,2	MCF-7	breast:

Variant related genes	Relation type
LINC00840	TF binding region

Extended variants
information (count: 40 )
Associated
traits (count: 1 )

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

rs_ID	r²[population]
rs1008803	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1009769	0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1009770	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs1009771	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899921	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs10899923	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899925	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899927	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10899928	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899929	0.93[EUR][1000 genomes]
rs10899932	0.86[AFR][1000 genomes];0.86[AMR][1000 genomes];0.88[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10899937	0.82[EUR][1000 genomes]
rs10899944	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10899945	0.83[EUR][1000 genomes]
rs11238736	0.81[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11238737	0.82[AMR][1000 genomes];0.97[ASN][1000 genomes]
rs11238741	0.93[EUR][1000 genomes]
rs11238749	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11238750	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11238753	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11238754	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11238756	0.85[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11238759	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11238761	0.84[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs11238764	0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs12357341	0.85[ASN][1000 genomes]
rs12359360	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1468061	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17464560	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17465611	0.82[EUR][1000 genomes]
rs2031513	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2169200	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4948580	0.86[EUR][1000 genomes]
rs4948581	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4948786	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56034709	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7903927	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7909314	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs912805	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9633744	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs881714	LINC00840	cis	lung	GTEx

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44340800-44357600	Weak transcription	Aorta	Aorta
2	chr10:44351000-44354800	Enhancers	NHDF-Ad	bronchial
3	chr10:44351000-44357800	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr10:44351400-44358000	Weak transcription	Adipose Nuclei	Adipose
5	chr10:44351600-44354400	Weak transcription	Right Atrium	heart
6	chr10:44352000-44359200	Weak transcription	Fetal Heart	heart
7	chr10:44352400-44354400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
8	chr10:44352400-44355800	Enhancers	HUVEC	blood vessel
9	chr10:44352600-44354000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
10	chr10:44352600-44354000	Enhancers	HSMM	muscle
11	chr10:44352600-44354200	Enhancers	Fetal Brain Female	brain
12	chr10:44352600-44354200	Enhancers	Osteobl	bone
13	chr10:44352600-44354600	Enhancers	Fetal Brain Male	brain
14	chr10:44352600-44354600	Enhancers	NHLF	lung
15	chr10:44352800-44357400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
16	chr10:44352800-44357400	Weak transcription	Hela-S3	cervix
17	chr10:44353000-44354400	Weak transcription	Left Ventricle	heart
18	chr10:44353000-44354800	Enhancers	Muscle Satellite Cultured Cells	--
19	chr10:44353000-44359600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr10:44353200-44358200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr10:44353400-44354600	Weak transcription	Lung	lung
22	chr10:44353400-44355000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr10:44353400-44357400	Weak transcription	Stomach Mucosa	stomach
24	chr10:44353400-44358400	Weak transcription	Fetal Stomach	stomach
25	chr10:44353400-44358400	Weak transcription	Gastric	stomach
26	chr10:44353400-44358800	Weak transcription	Fetal Muscle Trunk	muscle
27	chr10:44353400-44358800	Weak transcription	Pancreas	Pancrea
28	chr10:44353600-44354600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:44353600-44359600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
30	chr10:44353800-44354200	Bivalent Enhancer	NH-A	brain
31	chr10:44353800-44357400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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