Variant report

Variant	rs2293836
Chromosome Location	chr14:80307290-80307291
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 25 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11846744	1.00[CEU][hapmap];0.87[GIH][hapmap];0.91[LWK][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];0.80[YRI][hapmap]
rs17764884	0.85[CHB][hapmap];0.88[CHD][hapmap];0.87[GIH][hapmap]
rs2049826	1.00[CHB][hapmap];0.88[CHD][hapmap];1.00[JPT][hapmap]
rs2049827	0.90[JPT][hapmap];0.84[ASN][1000 genomes]
rs2067730	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2091925	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2091926	1.00[CHB][hapmap];1.00[JPT][hapmap];0.92[ASN][1000 genomes]
rs2205219	1.00[ASN][1000 genomes]
rs2293833	0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2293834	0.92[ASN][1000 genomes]
rs2293835	1.00[CEU][hapmap];0.89[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs2293838	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4522356	1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs7143634	0.85[CHB][hapmap]
rs7147960	1.00[CEU][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7148119	1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[MEX][hapmap];0.96[TSI][hapmap];1.00[YRI][hapmap];0.94[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7148719	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs760288	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs8003197	1.00[ASW][hapmap];1.00[CEU][hapmap];0.87[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];0.90[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs8004252	0.86[ASN][1000 genomes]
rs8004595	0.82[CHB][hapmap];0.90[JPT][hapmap];0.86[ASN][1000 genomes]
rs9888579	1.00[CHB][hapmap];1.00[JPT][hapmap]
rs9888612	1.00[CHB][hapmap];1.00[JPT][hapmap]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1045241	chr14:79885361-80734201	Weak transcription Enhancers Active TSS Bivalent/Poised TSS Flanking Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
2	nsv902113	chr14:80172094-80929699	Enhancers Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	7 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs2293836	POMT2	cis	parietal	SCAN

Chromatin state (count:12 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:80302600-80307600	Weak transcription	Brain Substantia Nigra	brain
2	chr14:80303200-80308000	Weak transcription	Brain Hippocampus Middle	brain
3	chr14:80303200-80308400	Weak transcription	NH-A	brain
4	chr14:80303400-80308200	Weak transcription	Brain Inferior Temporal Lobe	brain
5	chr14:80303400-80308400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
6	chr14:80303400-80308400	Weak transcription	Muscle Satellite Cultured Cells	--
7	chr14:80303400-80308400	Weak transcription	Osteobl	bone
8	chr14:80306400-80308000	Enhancers	Liver	Liver
9	chr14:80306800-80308000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr14:80306800-80308400	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr14:80307000-80308400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
12	chr14:80307200-80308600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived

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