Transcript 5788 | MetamORF

Transcript

ID CARD

MetamORF ID

5788

ENSMUST00000067476

Name

Spcs3-201

Strand

Biotype

protein_coding

Start-end positions

54520433-54529998

CDS Start-stop positions

54523263-54529905

CDS Relative positions

Sequences

Transcript sequence

GAT ...

Genome browsers

UCSC

Gene

NCBI:76687

Aliases

1810011E08Rik,
ENSMUSG00000054408, MGI:1923937, NCBI:76687,
OFF:Spcs3, SPC22/23, Spcs3

Chr 8

ORFs

26 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.
244479	33	TTG ...	LYQ ...	Ribo-seq	TTG	moderate	14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
1691566	150	TTG ...	LCS ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Downstream sORF	MEF
920869	75	ATA ...	IYL ...	Ribo-seq	ATA		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
432644	33	CTG ...	LQS ...	Ribo-seq	CTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell
81330	42	GTG ...	VWE ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, Spleen_B_cell, Testis
609815	30	CTG ...	LQS ...	Ribo-seq	CTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, Liver, MEF, Neutrophil, R1E
431751	141	CTG ...	LER ...	Ribo-seq	CTG	moderate	10	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC, E14, Liver, MEF, NSC, R1E, Spleen_B_cell, v6-5
251946	60	ATG ...	MLS ...	Ribo-seq	ATG		10	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, R1E
613459	69	TTG ...	LIG ...	Ribo-seq	TTG		11	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E
82091	30	GTG ...	VTW ...	Ribo-seq	GTG	moderate	13	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, R1E, Spleen_B_cell, Testis, v6-5
81955	96	ATG ...	MRG ...	Ribo-seq	ATG		5	sORFs_org_Mouse Johnstone2016	Overlapping sORF Upstream	Brain, Glioma, Liver, MEF, MESC, Neutrophil, Spleen_B_cell, Testis
919850	96	ATC ...	IGT ...	Ribo-seq	ATC	strong	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
81224	48	GTG ...	VRV ...	Ribo-seq	GTG	moderate	6	sORFs_org_Mouse	Overlapping sORF Upstream	3T3, B_cell, Brain, Neutrophil, Spleen_B_cell, Testis
5787	39	ATG ...	MEM ...	Ribo-seq	ATG		19	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, NSC, R1E, Skin_tumor, Spleen_B_cell, Testis, v6-5
78585	30	CTG ...	LCH ...	Ribo-seq	CTG	weak	12	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Liver, MEF, NSC, R1E, Spleen_B_cell, Testis, v6-5
79421	36	ATG ...	MCL ...	Ribo-seq	ATG	moderate	12	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, NSC, R1E, Spleen_B_cell, Testis
1691249	159	TTG ...	LYP ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Downstream sORF	MEF
5820	33	ATG ...	MAS ...	Ribo-seq	ATG		17	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Skin_tumor, Spleen_B_cell, Testis
608043	66	TTG ...	LIG ...	Ribo-seq	TTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, E14, Liver, MEF, Neutrophil
920214	72	ATA ...	IYL ...	Ribo-seq	ATA		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
431583	39	GTG ...	VGG ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative sORF Upstream	Spleen_B_cell
920327	42	ACG ...	TME ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
245516	57	ATG ...	MLS ...	Ribo-seq	ATG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Liver, MEF, Neutrophil
1691006	60	TTG ...	LTM ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
1691482	129	GTG ...	VTY ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Downstream sORF	MEF
5832	45	TTG ...	LTM ...	Ribo-seq	TTG		17	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Skin_tumor, Spleen_B_cell, Testis

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