Transcript 1154393

Transcript

ID CARD

MetamORF ID

1154393

ENSMUST00000192103

Name

Pcdhgc3-202

Strand

Biotype

nonsense_mediated_decay

Start-end positions

37806416-37841873

CDS Start-stop positions

37806548-37807877

CDS Relative positions

Sequences

Transcript sequence

AAC ...

Genome browsers

UCSC

Gene

NCBI:93706

Aliases

ENSMUSG00000102918,
MGI:1935201, NCBI:93706, OFF:Pcdhgc3,
PC43, Pcdh2, Pcdhgc3

Chr 18

ORFs

56 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.
1498634	180	ATG ...	MTM ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
392623	54	CTG ...	LCS ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1498307	168	CTG ...	LPS ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498576	108	CTG ...	LVL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
393316	51	CTG ...	LTG ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Downstream NMD sORF	NSC, v6-5
1498872	54	CTG ...	LQA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Downstream NMD sORF	NSC
396861	96	CTG ...	LAN ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1155138	177	CTG ...	LSA ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	E14, NSC, v6-5
1498615	135	ATG ...	MLG ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
398030	45	ATG ...	MGA ...	Ribo-seq	ATG	moderate	1	Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC
393587	84	ATG ...	MAR ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1498332	78	ATG ...	MRA ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1499003	69	TTG ...	LRS ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498110	60	CTG ...	LQK ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
394086	51	CTG ...	LAF ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC, v6-5
1498792	102	CTG ...	LPA ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1498825	96	GTG ...	VQP ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative CDS NMD sORF	NSC
1498990	78	ATG ...	MST ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498587	219	CTG ...	LGR ...	Ribo-seq	CTG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1499192	105	GTG ...	VLP ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1498434	126	CTG ...	LHC ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1499199	147	ATG ...	MQG ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC, NSC
1155752	36	ATG ...	MWG ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1498706	240	ATG ...	MEE ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1499023	126	ATG ...	MHP ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
393585	60	GTG ...	VMK ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14, NSC, v6-5
1498297	45	CTG ...	LRM ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
393416	102	ATG ...	MPL ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC, NSC
1498836	87	CTG ...	LTW ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498253	87	TTG ...	LPW ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1154491	36	TTG ...	LQS ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	v6-5
1498891	81	GTG ...	VRP ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative CDS NMD sORF	NSC
1498971	69	ATG ...	MRF ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
395265	60	ATG ...	MAT ...	Ribo-seq	ATG	strong	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
392626	48	CTG ...	LTT ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC, v6-5
1156143	204	CTG ...	LGG ...	Ribo-seq	CTG	strong	3	sORFs_org_Mouse	Downstream NMD sORF	E14, NSC, v6-5
1155382	138	GTG ...	VPD ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Downstream NMD sORF	E14, NSC, v6-5
1498753	195	CTG ...	LGD ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498728	60	GTG ...	VIL ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1498808	93	TTG ...	LQL ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498790	192	TTG ...	LAL ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1154392	39	GTG ...	VRW ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	NSC, v6-5
13682	90	CTG ...	LTN ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	E14, NSC, v6-5
1154707	33	CTG ...	LWD ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC, v6-5
393235	51	CTG ...	LAP ...	Ribo-seq	CTG	strong	3	sORFs_org_Mouse	Alternative Downstream NMD sORF	E14, NSC, v6-5
1155311	147	CTG ...	LQH ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	E14, NSC, v6-5
1498446	51	CTG ...	LSL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
392855	66	GTG ...	VVM ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	NSC
1154977	54	ATG ...	MPA ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC, v6-5
1498861	108	TTG ...	LGT ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1499162	69	CTG ...	LEN ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
40075	42	ATG ...	MSD ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative NMD sORF Upstream	E14, Glioma, Liver, MEF, MESC, NSC
1154662	117	GTG ...	VYI ...	Ribo-seq	GTG	moderate	3	sORFs_org_Mouse	Downstream NMD sORF	E14, NSC, v6-5
1498439	174	ATG ...	MRL ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1498379	72	CTG ...	LER ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC
1499028	144	GTG ...	VRD ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	NSC

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