Transcript 446004

Transcript

ID CARD

MetamORF ID

446004

ENSMUST00000166752

Name

Vps53-212

Strand

Biotype

nonsense_mediated_decay

Start-end positions

76062985-76179499

CDS Start-stop positions

76076460-76179499

CDS Relative positions

Sequences

Transcript sequence

ATG ...

Genome browsers

UCSC

Gene

NCBI:68299

Aliases

2010002A08Rik,
2310040I21Rik, 3100002B05Rik, ENSMUSG00000017288,
Hccs1, MGI:1915549, NCBI:68299,
OFF:Vps53, Vps53

Chr 11

ORFs

27 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.
292001	120	GTG ...	VKE ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
1287837	93	AAG ...	KPK ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
21000	60	CTG ...	LEH ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Spleen_B_cell
446036	117	CTG ...	LES ...	Ribo-seq	CTG		2	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Neutrophil, Spleen_B_cell
452147	93	GTG ...	VDY ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14, Spleen_B_cell
1285637	174	CTG ...	LEF ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
447123	234	CTG ...	LID ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Neutrophil, Spleen_B_cell
451925	162	GTG ...	VLP ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
1595749	45	ATG ...	MKR ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC
309511	39	CTG ...	LHM ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
446543	219	GTG ...	VAD ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
451934	30	GTG ...	VNK ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
447680	84	CTG ...	LED ...	Ribo-seq	CTG		2	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Neutrophil, Spleen_B_cell
301379	51	CTG ...	LAN ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
646060	66	TTG ...	LWR ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell, E14
1487534	69	ATG ...	MPL ...	Ribo-seq	ATG		1	Johnstone2016	Alternative InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC
292721	48	CTG ...	LNH ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
304111	69	CTG ...	LTT ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
448799	108	GTG ...	VKR ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
452465	72	CTG ...	LTT ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
448655	114	GTG ...	VQC ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell
1284289	60	AGG ...	RSW ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
446003	138	CTG ...	LDK ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Neutrophil, Spleen_B_cell
644410	48	CTG ...	LCC ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	B_cell
452553	42	TTG ...	LKG ...	Ribo-seq	TTG		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	Spleen_B_cell
1287150	78	AGG ...	RNW ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	E14
297229	30	CTG ...	LAG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Spleen_B_cell

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