Transcript 585 | MetamORF

Transcript

ID CARD

MetamORF ID

585

ENSMUST00000119654

Name

Pdpn-202

Strand

Biotype

protein_coding

Start-end positions

143268346-143299463

CDS Start-stop positions

143268420-143299255

CDS Relative positions

Sequences

Transcript sequence

GTT ...

Genome browsers

UCSC

Gene

NCBI:14726

Aliases

E11,
ENSMUSG00000028583, Gp38, MGI:103098,
NCBI:14726, OFF:Pdpn, OTS-8,
Pdpn, RANDAM-2, T1-alpha,
T1a, T1alpha

Chr 4

ORFs

14 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.
1584	66	ATG ...	MNL ...	Ribo-seq	ATG		2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, Skin_tumor
900388	87	ACG ...	TRS ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Overlapping sORF Upstream	BMDC
584	30	ATG ...	MNL ...	Ribo-seq	ATG		3	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, MEF, Skin_tumor
554570	69	GTG ...	VDR ...	Ribo-seq	GTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
691	42	CTG ...	LEG ...	Ribo-seq	CTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, MEF, Skin_tumor
547127	96	CTG ...	LLR ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Overlapping sORF Upstream	MEF
414083	243	ACG ...	TRS ...	Ribo-seq	ACG		2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	BMDC, C2C12
1400	84	GTG ...	VLL ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Skin_tumor
414156	93	CTG ...	LRL ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Overlapping sORF Upstream	BMDC, C2C12, MEF
554115	48	CTG ...	LGF ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF
1501	78	CTG ...	LEG ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Skin_tumor
1243	48	GTG ...	VLL ...	Ribo-seq	GTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, MEF, Skin_tumor
545356	45	ATG ...	MIT ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
553019	30	TTG ...	LVL ...	Ribo-seq	TTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	MEF

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