Transcript 56416 | MetamORF

Transcript

ID CARD

MetamORF ID

56416

ENSMUST00000143944

Name

Pgd-204

Strand

Biotype

retained_intron

Start-end positions

149161384-149166660

CDS Start-stop positions

CDS Relative positions

Sequences

Transcript sequence

ACT ...

Genome browsers

UCSC

Gene

NCBI:110208

Aliases

0610042A05Rik,
AU019875, C78335, ENSMUSG00000028961,
MGI:97553, NCBI:110208, OFF:Pgd,
Pgd

Chr 4

ORFs

16 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.
57608	36	CTG ...	LLR ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Intronic sORF	Liver, MEF, Neutrophil, Testis
57618	93	CTG ...	LLV ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Intronic sORF	Neutrophil, Testis
56415	183	TTG ...	LAN ...	Ribo-seq	TTG		7	sORFs_org_Mouse	Intronic sORF	B_cell, Brain, Liver, MEF, Neutrophil, NSC, Testis
718	36	ATG ...	MEE ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse	Intronic sORF	Brain, MEF, Neutrophil
547203	57	ATG ...	MTS ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse	Intronic sORF	Neutrophil, NSC
1059604	120	CTG ...	LGF ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Intronic sORF	MEF, Neutrophil
57270	96	CTG ...	LIG ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Intronic sORF	Brain, Liver, MEF, Neutrophil, Testis
56884	156	GTG ...	VVG ...	Ribo-seq	GTG		5	sORFs_org_Mouse	Intronic sORF	Brain, Liver, MEF, Neutrophil, Testis
1059356	102	TTG ...	LVH ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Intronic sORF	MEF, Neutrophil
59227	87	CTG ...	LAV ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Intronic sORF	Brain, Liver, MEF, Neutrophil, Testis
413852	93	ATC ...	IGL ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Intronic sORF	C2C12
545847	87	GTG ...	VLS ...	Ribo-seq	GTG	weak	4	sORFs_org_Mouse	Intronic sORF	B_cell, MEF, Neutrophil, NSC
813	51	GTG ...	VTS ...	Ribo-seq	GTG	weak	4	sORFs_org_Mouse	Intronic sORF	Brain, MEF, Neutrophil
1058966	33	TTG ...	LFT ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Intronic sORF	Neutrophil
58227	87	GTG ...	VKA ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Intronic sORF	Neutrophil, Testis
1058514	60	TTG ...	LNM ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Intronic sORF	MEF, Neutrophil

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