Transcript 1788 | MetamORF

Transcript

ID CARD

MetamORF ID

1788

ENSMUST00000143439

Name

Pdap1-203

Strand

Biotype

retained_intron

Start-end positions

145131371-145135472

CDS Start-stop positions

CDS Relative positions

Sequences

Transcript sequence

ACC ...

Genome browsers

UCSC

Gene

NCBI:231887

Aliases

ENSMUSG00000029623,
HASPP28, MGI:2448536, NCBI:231887,
OFF:Pdap1, PAP, PAP1,
Pdap1

Chr 5

ORFs

21 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.
977490	51	ACG ...	TLH ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	Intronic sORF	E14
183110	111	GTG ...	VEG ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Intronic sORF	3T3, Brain, Liver, MEF
1787	45	CTG ...	LDL ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Intronic sORF	3T3, Brain, Liver, MEF, Skin_tumor
63879	138	CTG ...	LGR ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Intronic sORF	E14
172649	39	CTG ...	LDG ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Intronic sORF	3T3, Brain, Liver, MEF
62891	126	TTG ...	LTL ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Intronic sORF	Brain, E14, MEF
176415	75	GTG ...	VAQ ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Intronic sORF	3T3, Brain, Liver, MEF
62709	63	ATG ...	MNK ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse	Intronic sORF	3T3, MEF
64583	48	GTG ...	VEM ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Intronic sORF	3T3
63711	36	ATG ...	MKV ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Intronic sORF	3T3, MEF
1239201	99	ATT ...	IDI ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Intronic sORF	E14
63281	42	ATG ...	MGL ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Intronic sORF	3T3
1240531	54	AGG ...	RSF ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Intronic sORF	E14
1239947	69	ATC ...	IWT ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Intronic sORF	E14
179500	168	CTG ...	LFC ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Intronic sORF	Brain, MEF
1239984	123	AAG ...	KRK ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Intronic sORF	E14
1239648	63	ACG ...	TGQ ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Intronic sORF	E14
169653	30	GTG ...	VKM ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Intronic sORF	3T3, MEF
65048	30	GTG ...	VTQ ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Intronic sORF	3T3, MEF
1234267	135	AGG ...	RGS ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Intronic sORF	E14
63001	120	TTG ...	LRT ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Intronic sORF	Brain, MEF

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