Transcript 62078 | MetamORF

Transcript

ID CARD

MetamORF ID

62078

ENSMUST00000136748

Name

Rhbdd2-205

Strand

Biotype

nonsense_mediated_decay

Start-end positions

135632654-135646448

CDS Start-stop positions

135632741-135635219

CDS Relative positions

Sequences

Transcript sequence

GTT ...

Genome browsers

UCSC

Gene

NCBI:215160

Aliases

0610011L13Rik,
AI480532, ENSMUSG00000039917, MGI:1915612,
NCBI:215160, OFF:Rhbdd2, Rhbdd2,
Rhbdl7, Usmg1

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.
176664	42	CTG ...	LPH ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Brain
181155	45	ATG ...	MAS ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC
172186	258	GTG ...	VED ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
62740	300	CTG ...	LTP ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Downstream NMD sORF	Brain, Testis
172465	57	TTG ...	LLL ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Downstream NMD sORF	Brain
185088	285	GTG ...	VSS ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
65798	189	CTG ...	LCY ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Downstream NMD sORF	Brain, Testis
63038	249	CTG ...	LAS ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Downstream NMD sORF	Brain, Testis
177646	300	CTG ...	LSF ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
173995	57	CTG ...	LGT ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Downstream NMD sORF	Brain
171235	267	CTG ...	LGE ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
62208	60	TTG ...	LFK ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Downstream NMD sORF	Testis
175427	72	GTG ...	VYS ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	Brain
171040	141	GTG ...	VYP ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	Brain
63200	108	CTG ...	LKL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Downstream NMD sORF	Testis
1019043	30	TTG ...	LIR ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
174863	57	TTG ...	LLA ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
172688	81	GTG ...	VAP ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
171303	216	CTG ...	LGV ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
184011	276	CTG ...	LSK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
62077	180	GTG ...	VQN ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Downstream NMD sORF	Testis

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