Transcript 392482

Transcript

ID CARD

MetamORF ID

392482

ENSMUST00000160721

Name

Pcdh1-203

Strand

Biotype

protein_coding

Start-end positions

38185914-38212053

CDS Start-stop positions

38191074-38203580

CDS Relative positions

Sequences

Transcript sequence

GGG ...

Genome browsers

UCSC

Gene

NCBI:75599

Aliases

2010005A06Rik,
AI585920, ENSMUSG00000051375, MGI:104692,
NCBI:75599, OFF:Pcdh1, Pcdh1

Chr 18

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.
397528	45	CTG ...	LPT ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
1006506	42	CTG ...	LRT ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	Brain
1006498	39	CTG ...	LGL ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
398607	189	GTG ...	VNA ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
1006289	60	TTG ...	LVP ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	InCDS Overlapping sORF	Brain
1006213	96	TTG ...	LEE ...	Ribo-seq	TTG	optimal	2	sORFs_org_Mouse	Alternative Downstream sORF	Brain, Liver
1006005	81	TTG ...	LTQ ...	Ribo-seq	TTG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	Brain, Liver
395054	48	TTG ...	LLP ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
397196	33	CTG ...	LRP ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, Liver
398319	210	TTG ...	LSW ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
713653	57	TTG ...	LGA ...	Ribo-seq	TTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
1006013	156	CTG ...	LPS ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	Brain, Liver
1006020	45	ATG ...	MPE ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC
398035	108	CTG ...	LNR ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative sORF Upstream	Brain, Liver
13352	75	CTG ...	LGI ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
394220	75	CTG ...	LRT ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
13643	153	ATG ...	MAR ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC
1006670	252	GTG ...	VPY ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	Brain, Liver
396997	108	GTG ...	VSL ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
392481	36	CTG ...	LLR ...	Ribo-seq	CTG	moderate	4	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, Liver
1006140	45	ATG ...	MTP ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Downstream sORF	Brain, Glioma, Liver, MEF, MESC
1006552	165	GTG ...	VRL ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative Downstream sORF	Brain, Liver
1006593	51	ATG ...	MSC ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Brain, Glioma, Liver, MEF, MESC
1006146	30	ATG ...	MSV ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	Brain
397880	102	CTG ...	LCL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
13342	96	GTG ...	VNA ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain

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