Transcript 54584 | MetamORF

Transcript

ID CARD

MetamORF ID

54584

ENSMUST00000192962

Name

Ubqln4-203

Strand

Biotype

nonsense_mediated_decay

Start-end positions

88553796-88556838

CDS Start-stop positions

88553805-88555431

CDS Relative positions

Sequences

Transcript sequence

GGC ...

Genome browsers

UCSC

Gene

NCBI:94232

Aliases

A1u,
A1Up, AI663987, CIP75,
ENSMUSG00000008604, MGI:2150152, NCBI:94232,
OFF:Ubqln4, UBIN, Ubqln4

Chr 3

ORFs

24 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.
1882005	51	CTG ...	LQR ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
1375816	192	CTG ...	LLL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
1881645	81	CTG ...	LAV ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
1375628	171	CTG ...	LTL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
1219168	144	ATC ...	ISR ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Downstream NMD Overlapping sORF	E14
1173333	102	CTG ...	LQL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
505789	69	GTG ...	VGL ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
819496	120	CTG ...	LSS ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
1219907	84	ATG ...	MLA ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14, R1E
1374458	198	CTG ...	LLL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
1373996	165	CTG ...	LPL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
1218109	102	ATC ...	IFA ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Downstream NMD Overlapping sORF	E14
139568	111	CTG ...	LVL ...	Ribo-seq	CTG		4	sORFs_org_Mouse	Downstream NMD Overlapping sORF	B_cell, Brain, Liver, Spleen_B_cell
1218465	63	AGG ...	RGA ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
752623	63	CTG ...	LRR ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
1373599	255	GTG ...	VTA ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Downstream NMD sORF	Brain, R1E
1373487	75	GTG ...	VEG ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	R1E
54583	66	CTG ...	LSQ ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Downstream NMD Overlapping sORF	B_cell, Brain, Liver, R1E, Testis
1221202	48	AGG ...	RRS ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
135290	105	CTG ...	LIF ...	Ribo-seq	CTG		5	sORFs_org_Mouse	Downstream NMD Overlapping sORF	B_cell, Brain, Liver, Spleen_B_cell
1881175	39	TTG ...	LTT ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	R1E
1170810	102	CTG ...	LAI ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14
1221378	195	CTG ...	LLL ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14, R1E
1222687	87	ATC ...	ILK ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Downstream NMD Overlapping sORF	E14

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