Transcript 84447 | MetamORF

Transcript

ID CARD

MetamORF ID

84447

ENSMUST00000139046

Name

Tpm1-220

Strand

Biotype

nonsense_mediated_decay

Start-end positions

67022622-67043778

CDS Start-stop positions

67033976-67043709

CDS Relative positions

Sequences

Transcript sequence

CGG ...

Genome browsers

UCSC

Gene

NCBI:22003

Aliases

AA986836,
AI854628, alpha-TM, ENSMUSG00000032366,
MGI:98809, NCBI:22003, OFF:Tpm1,
TM2, Tm3, Tmpa,
Tpm-1, Tpm1, TPM1kappa

Chr 9

ORFs

22 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.
434129	42	CTG ...	LEE ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
433542	36	CTG ...	LDQ ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Downstream NMD sORF	MEF, Spleen_B_cell
417368	117	CTG ...	LNR ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
1586932	60	GTG ...	VGS ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	MEF
437184	63	CTG ...	LVI ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Spleen_B_cell
1584375	69	GTG ...	VPM ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	MEF
1584010	96	ATG ...	MRT ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	MEF
434161	78	GTG ...	VAH ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Downstream NMD sORF	Spleen_B_cell
434019	51	CTG ...	LQK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
417175	36	ATG ...	MKK ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Spleen_B_cell
438407	42	CTG ...	LER ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Spleen_B_cell
260568	57	TTG ...	LKA ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD Overlapping sORF	Spleen_B_cell
417548	84	TTG ...	LDR ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
86785	168	CTG ...	LEA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Testis
1587624	63	ATG ...	MVG ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	MEF
86684	159	GTG ...	VRR ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Testis
436879	99	CTG ...	LVE ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
269450	72	ATG ...	MPR ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
436180	75	GTG ...	VAR ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Spleen_B_cell
1583705	36	TTG ...	LET ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	MEF
84446	138	CTG ...	LQE ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Testis
438244	63	CTG ...	LAT ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell

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