Transcript 53467 | MetamORF

Transcript

ID CARD

MetamORF ID

53467

ENSMUST00000199735

Name

Prpf38b-208

Strand

Biotype

nonsense_mediated_decay

Start-end positions

108903147-108911468

CDS Start-stop positions

108907809-108911442

CDS Relative positions

Sequences

Transcript sequence

CCC ...

Genome browsers

UCSC

Gene

NCBI:66921

Aliases

1110021E09Rik,
AU018955, ENSMUSG00000027881, MGI:1914171,
NCBI:66921, OFF:Prpf38b, Prpf38b

Chr 3

ORFs

29 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.
503837	30	ATG ...	MDL ...	Ribo-seq	ATG	strong	1	Johnstone2016	Downstream NMD sORF	Glioma, Liver, MEF, MESC
820470	246	CTG ...	LAV ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Downstream NMD sORF	MEF
819461	240	GTG ...	VLK ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	MEF
536241	60	TTG ...	LEQ ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
819237	147	ATG ...	MIA ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	MEF
818987	237	TTG ...	LKR ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Downstream NMD sORF	MEF
536763	63	GTG ...	VLE ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1171960	54	ATG ...	MVF ...	Ribo-seq	ATG	strong	1	Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC
130582	39	GTG ...	VVD ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, NSC
53219	156	GTG ...	VLP ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF, Neutrophil, v6-5
820434	264	GTG ...	VAV ...	Ribo-seq	GTG	strong	1	sORFs_org_Mouse	Downstream NMD sORF	MEF
972774	48	AGG ...	REA ...	Ribo-seq	AGG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
54193	147	CTG ...	LWG ...	Ribo-seq	CTG		4	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF, Neutrophil, v6-5
506411	87	GTG ...	VAA ...	Ribo-seq	GTG	strong	2	sORFs_org_Mouse	InCDS NMD Overlapping sORF	MEF
139196	93	CTG ...	LSS ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF, v6-5
1779297	93	GTG ...	VMG ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
141098	72	GTG ...	VQL ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF
135103	129	GTG ...	VGQ ...	Ribo-seq	GTG	strong	2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF
53466	36	GTG ...	VDE ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, Testis
505383	36	ATG ...	MCC ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse Johnstone2016	InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC
504959	66	ATG ...	MLS ...	Ribo-seq	ATG	weak	1	Johnstone2016	Alternative InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC
137961	114	CTG ...	LKL ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF, v6-5
53436	231	GTG ...	VTQ ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, v6-5
143042	42	ATG ...	MLR ...	Ribo-seq	ATG		1	Johnstone2016	Downstream NMD sORF	Glioma, Liver, MEF, MESC
54416	177	GTG ...	VSG ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF, Neutrophil, v6-5
51768	273	CTG ...	LTG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
53278	153	CTG ...	LPL ...	Ribo-seq	CTG		4	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, MEF, Neutrophil, v6-5
816938	195	ATG ...	MWR ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC
134506	57	CTG ...	LWD ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD Overlapping sORF	v6-5

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