Variant report

Variant	rs11238754
Chromosome Location	chr10:44367155-44367156
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:44363605..44366382-chr10:44366724..44368255,2	K562	blood:

Extended variants
information (count: 39 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:39)

rs_ID	r²[population]
rs1008803	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1009769	0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs1009770	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs1009771	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899921	0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs10899923	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899925	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899927	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10899928	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs10899929	0.93[EUR][1000 genomes]
rs10899932	0.90[AFR][1000 genomes];0.85[AMR][1000 genomes];0.88[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10899937	0.82[EUR][1000 genomes]
rs10899944	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10899945	0.83[EUR][1000 genomes]
rs11238736	0.82[CHB][hapmap];1.00[JPT][hapmap];0.91[ASN][1000 genomes]
rs11238737	0.82[CHB][hapmap];1.00[JPT][hapmap];0.81[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs11238741	0.93[EUR][1000 genomes]
rs11238749	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11238750	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11238753	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11238756	0.86[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11238759	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11238761	0.89[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs11238764	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12359360	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs1468061	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17464560	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs17465611	0.82[EUR][1000 genomes]
rs2031513	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2169200	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs4948580	0.86[EUR][1000 genomes]
rs4948581	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs4948786	0.91[CEU][hapmap];0.88[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56034709	0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7903927	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs7909314	0.87[AFR][1000 genomes];0.96[AMR][1000 genomes];0.99[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs881714	0.93[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs912805	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs9633744	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11238754	LINC00840	cis	lung	GTEx

Chromatin state (count:23 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44357800-44367200	Enhancers	Left Ventricle	heart
2	chr10:44360000-44392200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
3	chr10:44361800-44373000	Weak transcription	Fetal Heart	heart
4	chr10:44364200-44374000	Weak transcription	NHLF	lung
5	chr10:44365000-44373400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr10:44365000-44373400	Weak transcription	Right Ventricle	heart
7	chr10:44365400-44371400	Weak transcription	NHDF-Ad	bronchial
8	chr10:44365800-44367400	Enhancers	Fetal Stomach	stomach
9	chr10:44365800-44368400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
10	chr10:44366000-44367200	Enhancers	Adipose Nuclei	Adipose
11	chr10:44366000-44368400	Enhancers	Brain Inferior Temporal Lobe	brain
12	chr10:44366400-44367200	Enhancers	Brain Cingulate Gyrus	brain
13	chr10:44366400-44367200	Enhancers	Fetal Muscle Leg	muscle
14	chr10:44366400-44368600	Enhancers	Brain Hippocampus Middle	brain
15	chr10:44366600-44367200	Enhancers	Esophagus	oesophagus
16	chr10:44366600-44367200	Enhancers	Right Atrium	heart
17	chr10:44366600-44367200	Enhancers	HSMM	muscle
18	chr10:44366600-44367200	Enhancers	HSMMtube	muscle
19	chr10:44366600-44367400	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
20	chr10:44366600-44367400	Enhancers	Brain Germinal Matrix	brain
21	chr10:44366800-44367200	Enhancers	Spleen	Spleen
22	chr10:44366800-44367600	Enhancers	Fetal Muscle Trunk	muscle
23	chr10:44366800-44371400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links