Transcript 9942 | MetamORF

Transcript

ID CARD

MetamORF ID

9942

ENSMUST00000139715

Name

Psmd1-204

Strand

Biotype

nonsense_mediated_decay

Start-end positions

86064619-86132749

CDS Start-stop positions

86064790-86075811

CDS Relative positions

Sequences

Transcript sequence

AGG ...

Genome browsers

UCSC

Gene

NCBI:70247

Aliases

2410026J11Rik,
ENSMUSG00000026229, MGI:1917497, NCBI:70247,
OFF:Psmd1, P112, Psmd1,
S1

Chr 1

ORFs

51 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.
363504	84	ATG ...	MKV ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	BMDC
311228	33	GTG ...	VES ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain, E14
644814	72	ATG ...	MSM ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Downstream NMD sORF	BMDC
801388	147	CTG ...	LKM ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Downstream NMD sORF	B_cell
310650	132	TTG ...	LSS ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
832802	78	TTG ...	LRI ...	Ribo-seq	TTG	weak	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
332138	60	ATG ...	MSE ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Downstream NMD sORF	Brain
78189	51	TTG ...	LAR ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	B_cell
929748	30	ATA ...	ITL ...	Ribo-seq	ATA		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	BMDC
779303	186	CTG ...	LMA ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain, R1E
228716	63	TTG ...	LAL ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
11380	207	CTG ...	LVK ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain, Skin_tumor
995181	165	CTG ...	LGL ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
833813	210	GTG ...	VEN ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
313843	90	ATG ...	MPR ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse Johnstone2016	Alternative Downstream NMD sORF	B_cell, Brain, Glioma, Liver, MEF, MESC
406849	75	GTG ...	VCH ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
1576154	45	ATC ...	ITS ...	Ribo-seq	ATC		1	sORFs_org_Mouse	InCDS NMD Overlapping sORF	MEF
943274	219	ATT ...	ICT ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Downstream NMD sORF	BMDC
691908	45	TTG ...	LTI ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Downstream NMD sORF	B_cell
101606	33	ATG ...	MSL ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
295702	87	ATG ...	MIT ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, BMDC, Brain
23480	57	CTG ...	LWT ...	Ribo-seq	CTG		3	sORFs_org_Mouse	Alternative NMD Overlapping sORF Upstream	B_cell, BMDC, C2C12
14824	33	ATG ...	MTS ...	Ribo-seq	ATG	weak	1	Johnstone2016	InCDS NMD Overlapping sORF	Glioma, Liver, MEF, MESC
792648	81	GTG ...	VPG ...	Ribo-seq	GTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
772665	159	TTG ...	LYE ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
1576148	45	ATT ...	IIS ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	MEF
134188	195	TTG ...	LPE ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
1001696	141	CTG ...	LAV ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Downstream NMD sORF	Brain
1003835	150	CTG ...	LRG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Downstream NMD sORF	Brain
9941	228	GTG ...	VSD ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain, Skin_tumor
8327	48	GTG ...	VND ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Brain, C2C12
408166	63	ATG ...	MMS ...	Ribo-seq	ATG		2	sORFs_org_Mouse	Downstream NMD sORF	BMDC, Brain
336053	159	TTG ...	LEG ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
959413	30	ATC ...	ISS ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Downstream NMD sORF	BMDC
315213	90	ATG ...	MKM ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	BMDC
953180	69	AGG ...	RFP ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	BMDC
781420	60	ATG ...	MHK ...	Ribo-seq	ATG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
320304	231	TTG ...	LVM ...	Ribo-seq	TTG		4	sORFs_org_Mouse	Downstream NMD sORF	B_cell, Brain, E14
961091	84	ATC ...	IND ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
388713	57	TTG ...	LLW ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, BMDC, Brain
663554	36	ATG ...	MLS ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
6642	60	TTG ...	LNA ...	Ribo-seq	TTG		2	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	Brain, C2C12
998924	153	TTG ...	LAA ...	Ribo-seq	TTG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	Brain
804206	87	ATG ...	MLF ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Downstream NMD sORF	B_cell
411418	42	ATT ...	ISL ...	Ribo-seq	ATT		1	sORFs_org_Mouse	Alternative InCDS NMD Overlapping sORF	C2C12
780847	189	CTG ...	LLM ...	Ribo-seq	CTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
769093	66	TTG ...	LAM ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell
371159	117	TTG ...	LGL ...	Ribo-seq	TTG		4	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain, R1E
943849	204	AAG ...	KEA ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative Downstream NMD sORF	BMDC
360201	147	GTG ...	VNK ...	Ribo-seq	GTG		2	sORFs_org_Mouse	Alternative Downstream NMD sORF	B_cell, Brain
805787	105	ATG ...	MIT ...	Ribo-seq	ATG		1	Johnstone2016	Alternative Downstream NMD sORF	Glioma, Liver, MEF, MESC

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