Transcript 33559 | MetamORF

Transcript

ID CARD

MetamORF ID

33559

ENSMUST00000023143

Name

Litaf-201

Strand

Biotype

protein_coding

Start-end positions

10959275-10993121

CDS Start-stop positions

10960943-10966644

CDS Relative positions

Sequences

Transcript sequence

TGC ...

Genome browsers

UCSC

Gene

NCBI:56722

Aliases

3222402J11Rik,
C85531, ENSMUSG00000022500, Litaf,
MGI:1929512, N4WBP3, NCBI:56722,
OFF:Litaf, TBX1

Chr 16

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.
793252	144	GTG ...	VLS ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
697474	102	ATG ...	MKK ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Glioma, Liver, MEF, MESC
33967	45	ATG ...	MTA ...	Ribo-seq	ATG	weak	9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Liver, MEF, Neutrophil, Testis, v6-5
951191	180	CTG ...	LLL ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
793639	132	CTG ...	LQQ ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
694296	33	TTG ...	LLA ...	Ribo-seq	TTG	moderate	7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Liver, MEF, Neutrophil
34462	30	GTG ...	VAV ...	Ribo-seq	GTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, MEF, Neutrophil, Spleen_B_cell, Testis
33681	87	TTG ...	LPC ...	Ribo-seq	TTG	weak	8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, Liver, MEF, Neutrophil, Spleen_B_cell, Testis, v6-5
699686	69	CTG ...	LAA ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	3T3, B_cell, E14, Liver, MEF, Neutrophil
1186963	120	AGG ...	RMW ...	Ribo-seq	AGG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
35199	114	CTG ...	LCL ...	Ribo-seq	CTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Liver, MEF, Neutrophil, Testis, v6-5
953774	99	ACG ...	TPT ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
952670	36	AAG ...	KSP ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	Alternative Downstream sORF	BMDC
34346	69	ATG ...	MCS ...	Ribo-seq	ATG	weak	11	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, Testis, v6-5
792335	141	CTG ...	LSF ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
952536	72	CTG ...	LWQ ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
376565	60	GTG ...	VAV ...	Ribo-seq	GTG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, Spleen_B_cell
376295	87	ATG ...	MRE ...	Ribo-seq	ATG		13	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil
34180	57	CTG ...	LSP ...	Ribo-seq	CTG	moderate	9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, Liver, MEF, Neutrophil, Testis, v6-5
951763	129	CTG ...	LPQ ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
1676592	36	ATG ...	MSK ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream sORF	MEF
692662	87	GTG ...	VST ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
951214	117	ATG ...	MWT ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative Downstream Overlapping sORF	BMDC, Glioma, Liver, MEF, MESC, Neutrophil
953178	129	ACG ...	TPY ...	Ribo-seq	ACG	weak	2	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC, E14
35444	108	CTG ...	LSP ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Liver, MEF, Neutrophil, Testis, v6-5
33558	57	ATG ...	MRE ...	Ribo-seq	ATG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14, Neutrophil, Testis
692927	30	CTG ...	LAA ...	Ribo-seq	CTG	moderate	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF

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