Transcript 15163 | MetamORF

Transcript

ID CARD

MetamORF ID

15163

ENSMUST00000142071

Name

Rbm39-215

Strand

Biotype

nonsense_mediated_decay

Start-end positions

156147249-156180149

CDS Start-stop positions

156152473-156179227

CDS Relative positions

Sequences

Transcript sequence

GCC ...

Genome browsers

UCSC

Gene

NCBI:170791

Aliases

1500012C14Rik,
2310040E03Rik, B330012G18Rik, C79248,
caper, ENSMUSG00000027620, MGI:2157953,
NCBI:170791, OFF:Rbm39, R75070,
Rbm39, Rnpc2

Chr 2

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.
103908	75	ATG ...	MMS ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
497029	36	CTG ...	LAD ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3
43955	33	CTG ...	LAF ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	B_cell
44664	51	TTG ...	LQT ...	Ribo-seq	TTG		3	sORFs_org_Mouse	InCDS NMD Overlapping sORF	B_cell, Brain, Neutrophil
106840	33	TTG ...	LTW ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	InCDS NMD Overlapping sORF	3T3, B_cell
494688	42	GTG ...	VKL ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
45616	81	TTG ...	LQI ...	Ribo-seq	TTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	B_cell
100310	66	CTG ...	LSC ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
104084	72	ATG ...	MSL ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
15162	39	CTG ...	LEL ...	Ribo-seq	CTG	strong	3	sORFs_org_Mouse	InCDS NMD Overlapping sORF	3T3, B_cell, Skin_tumor
808796	228	TTG ...	LEQ ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
495310	66	TTG ...	LKN ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
735546	39	ATG ...	MCQ ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3, B_cell
110090	99	TTG ...	LDG ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
738948	48	ATG ...	MEE ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
738187	102	TTG ...	LFI ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3
733069	39	CTG ...	LTQ ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	3T3
44920	171	ATG ...	MRE ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Liver
813204	219	CTG ...	LNG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
46531	78	GTG ...	VPL ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	3T3
16148	42	TTG ...	LNS ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Skin_tumor

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