Variant report

Variant	rs10899944
Chromosome Location	chr10:44393232-44393233
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	chr10:44387084..44390446-chr10:44391009..44393507,3	MCF-7	breast:

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

rSNPs within LD-proxies of this variant (count:38)

rs_ID	r²[population]
rs1008803	0.82[EUR][1000 genomes]
rs1009769	0.82[EUR][1000 genomes]
rs1009770	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1009771	0.81[EUR][1000 genomes]
rs10899923	0.81[EUR][1000 genomes]
rs10899925	0.81[EUR][1000 genomes]
rs10899927	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10899928	0.81[EUR][1000 genomes]
rs10899929	0.83[EUR][1000 genomes]
rs10899932	0.85[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10899937	0.80[EUR][1000 genomes]
rs10899945	0.81[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs11238736	0.92[JPT][hapmap]
rs11238737	0.92[JPT][hapmap]
rs11238741	0.81[EUR][1000 genomes]
rs11238749	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11238750	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11238753	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11238754	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs11238756	0.81[EUR][1000 genomes]
rs11238759	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11238761	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11238764	0.80[AMR][1000 genomes];0.86[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11238766	0.84[EUR][1000 genomes]
rs1468061	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17464560	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs17465611	0.80[EUR][1000 genomes]
rs2031513	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2169199	0.82[JPT][hapmap]
rs2169200	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs4948581	0.81[EUR][1000 genomes]
rs4948786	0.82[CEU][hapmap];0.81[EUR][1000 genomes]
rs56034709	0.87[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7903927	0.81[EUR][1000 genomes]
rs7909314	0.83[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs881714	0.86[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs912805	0.81[EUR][1000 genomes]
rs9633744	0.81[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1051921	chr10:44378011-44458880	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Active TSS	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs10899944	LINC00840	cis	lung	GTEx

Chromatin state (count:15 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:44387800-44394600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr10:44388800-44393800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
3	chr10:44388800-44393800	Weak transcription	Right Atrium	heart
4	chr10:44388800-44394000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
5	chr10:44388800-44394000	Weak transcription	Left Ventricle	heart
6	chr10:44388800-44394200	Weak transcription	Osteobl	bone
7	chr10:44388800-44397600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
8	chr10:44389000-44394200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr10:44389000-44394800	Weak transcription	Fetal Kidney	kidney
10	chr10:44389600-44393400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr10:44390800-44394000	Weak transcription	NHDF-Ad	bronchial
12	chr10:44392400-44402000	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
13	chr10:44392600-44394000	Weak transcription	Fetal Heart	heart
14	chr10:44393200-44393800	Enhancers	Fetal Muscle Leg	muscle
15	chr10:44393200-44394000	Enhancers	Fetal Muscle Trunk	muscle

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