Transcript 55839 | MetamORF

Transcript

ID CARD

MetamORF ID

55839

ENSMUST00000055688

Name

Phf13-201

Strand

Biotype

protein_coding

Start-end positions

151989633-151996258

CDS Start-stop positions

151991553-151995864

CDS Relative positions

Sequences

Transcript sequence

ACC ...

Genome browsers

UCSC

Gene

NCBI:230936

Aliases

BC029632,
ENSMUSG00000047777, MGI:2446217, NCBI:230936,
OFF:Phf13, Phf13, Phf5,
SPOC1

Chr 4

ORFs

48 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.
149904	36	ATG ...	MIP ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
1381402	42	ATG ...	MRA ...	Ribo-seq	ATG		2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	E14, Glioma, Liver, MEF, MESC
61277	135	CTG ...	LKE ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Testis
1224917	117	AAG ...	KFL ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	E14
1082077	30	CTG ...	LPK ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, R1E, v6-5
554613	30	CTG ...	LCG ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	sORF Upstream	3T3, E14
59464	147	GTG ...	VQR ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	Testis
1233125	84	ACG ...	TKT ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
160537	30	CTG ...	LCH ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
56413	96	GTG ...	VPH ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis, v6-5
56209	135	ATG ...	MWR ...	Ribo-seq	ATG	weak	3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	E14, Glioma, Liver, MEF, MESC, Testis
61273	117	TTG ...	LSA ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Testis
1377548	63	CTG ...	LGP ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
59287	48	CTG ...	LFL ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis
1228148	81	AGG ...	RES ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1653662	45	CTG ...	LAM ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
158420	36	GTG ...	VLL ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
1655913	39	ATG ...	MMK ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
57175	72	CTG ...	LCK ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis, v6-5
56493	111	TTG ...	LSA ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	Testis
58936	123	CTG ...	LVS ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis
58269	90	TTG ...	LSA ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Testis
1229319	114	ATC ...	ISE ...	Ribo-seq	ATC	moderate	1	sORFs_org_Mouse	sORF Upstream	E14
58454	114	CTG ...	LTS ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis
1379724	42	CTG ...	LHE ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
57672	81	TTG ...	LIS ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	Testis
1226053	156	CTG ...	LHP ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	sORF Upstream	E14
1654212	36	ATG ...	MKT ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
158875	87	CTG ...	LLT ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14
56564	84	CTG ...	LTP ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Testis
57051	144	TTG ...	LTA ...	Ribo-seq	TTG	weak	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, MEF, Testis
57538	126	ATG ...	MSR ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream Overlapping sORF	Glioma, Liver, MEF, MESC, Testis
56878	156	CTG ...	LPG ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, E14, Testis
55838	147	CTG ...	LQT ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis
57972	42	ATG ...	MLQ ...	Ribo-seq	ATG	weak	3	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	E14, Glioma, Liver, MEF, MESC, Testis
56430	75	CTG ...	LWK ...	Ribo-seq	CTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	E14, Testis
544958	39	ATG ...	MMI ...	Ribo-seq	ATG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
1658678	72	CTG ...	LAM ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
56518	87	CTG ...	LDS ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis, v6-5
57361	108	CTG ...	LKE ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Testis
1231777	108	AGG ...	RES ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
61207	84	CTG ...	LWK ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, Testis
1231999	63	ATG ...	MKT ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14, MEF
1231184	57	ACG ...	TKT ...	Ribo-seq	ACG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
59305	33	ATG ...	MRA ...	Ribo-seq	ATG		2	sORFs_org_Mouse	InCDS Overlapping sORF	E14, Testis
1225528	99	ACG ...	TRH ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	sORF Upstream	E14
1083998	66	ATG ...	MMK ...	Ribo-seq	ATG		3	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, v6-5
159370	45	GTG ...	VAL ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain

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