Transcript 28695 | MetamORF

Transcript

ID CARD

MetamORF ID

28695

ENSMUST00000052455

Name

Pigm-201

Strand

Biotype

protein_coding

Start-end positions

172376546-172384099

CDS Start-stop positions

172376699-172377970

CDS Relative positions

Sequences

Transcript sequence

GGA ...

Genome browsers

UCSC

Gene

NCBI:67556

Aliases

4933437L05Rik,
AI644422, AV302080, C920011G20Rik,
ENSMUSG00000050229, MGI:1914806, NCBI:67556,
OFF:Pigm, Pigm

Chr 1

ORFs

10 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.
394476	30	GTG ...	VSS ...	Ribo-seq	GTG	moderate	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, Spleen_B_cell
1121612	36	CTG ...	LFP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
1134925	30	ATG ...	MCS ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	MEF, v6-5
1180508	159	AGG ...	RKE ...	Ribo-seq	AGG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
1136026	135	TTG ...	LVS ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	v6-5
958068	39	TTG ...	LSS ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
1136050	192	ATG ...	MAG ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream Overlapping sORF	Glioma, Liver, MEF, MESC, v6-5
1132878	39	CTG ...	LLF ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	v6-5
1123922	102	CTG ...	LFH ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	v6-5
28694	42	ATG ...	MLP ...	Ribo-seq	ATG	moderate	12	sORFs_org_Mouse Johnstone2016	sORF Upstream	3T3, B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, R1E, Spleen_B_cell, Testis

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