Transcript 5647 | MetamORF

Transcript

ID CARD

MetamORF ID

5647

ENST00000531178

Name

CDK2AP2-204

Strand

Biotype

nonsense_mediated_decay

Start-end positions

67506620-67508158

CDS Start-stop positions

67507897-67508082

CDS Relative positions

77-262

Sequences

Transcript sequence

AGA ...

Genome browsers

UCSC

Gene

HGNC:30833

Aliases

CDK2AP2,
DOC-1R, ENSG00000167797, HGNC:30833,
NCBI:10263, OFF:CDK2AP2, p14

Chr 11

ORFs

6 ORFs

MetamORF ORF ID The MetamORF ID of the ORF. This is an unique ID referring to the ORF.	ORF lenght The genomic length of the ORF (in bp). This length is defined as the sum of the lengths of each exon constituting the ORF (thus excluding its eventual introns) and includes both the start and the stop codons.	Nucleic sequence The nucleic sequence of the ORF.	Amino acid sequence The amino acid sequence of the ORF.	Identification The method of identification used to identify the ORF. MetamORF currently integrates data from three main type of identification methods: bioinformatic predictions, ribosome profiling experiments and mass spectrometry experiments (either proteomics or proteogenomics). See the data sources section of the advances documentation for more information about this.	Start codon The start codon sequence of the ORF.	Kozak context The Kozak context computed by our algorithm for the ORF on the transcript. See the Kozak contexts section of the advanced documentation for more details regarding the nomenclature we use.	Exp. count The number of original datasets that identifed the ORF on the transcript.	Data sources The data sources in which the ORF has been identified. Click on the button to display all the original IDs in a pop-up. See the data sources section of the advanced documentation for more details regarding the information related to the data sources and the original ORF IDs.	ORF annotations A comma-separated list of the annotations computed by our algorithm for the ORF on the transcript. See the section dedicated to ORF annotations in the advanced documentation for more details regarding the nomenclature we use.	Cell types A comma-separated list of the cell types in which the ORF has already been identified on the transcript.
103075	90	CTG ...	LSV ...	Ribo-seq	CTG		5	sORFs_org_Human	Downstream NMD sORF	guo_2014, HEK293, HeLa
636013	33	ATG ...	MLA ...	Ribo-seq	ATG	weak	1	Johnstone2016	Alternative Downstream NMD sORF	Brain_tumor, HEK293, HeLa, HFF
5646	33	CTG ...	LAE ...	Ribo-seq	CTG	moderate	20	sORFs_org_Human	Alternative Downstream NMD sORF	BJ, Blood, Brain, guo_2014, HAP1, HEK293, HeLa, hES, LCL, MDA-MB-231, MM1S, RPE-1, THP-1, U2OS
910351	153	CTG ...	LSG ...	Ribo-seq	CTG	weak	3	sORFs_org_Human	Alternative NMD Overlapping sORF Upstream	Jurkat, MDA-MB-231, RPE-1
103077	93	CTG ...	LLS ...	Ribo-seq	CTG		5	sORFs_org_Human	Downstream NMD sORF	guo_2014, HEK293, HeLa
3315853	186	ATG ...	MSY ...	Ribo-seq	ATG	moderate	1	Johnstone2016	CDS NMD sORF	Brain_tumor, HEK293, HeLa, HFF

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