Transcript 56969 | MetamORF

Transcript

ID CARD

MetamORF ID

56969

ENSMUST00000030623

Name

Sfpq-201

Strand

Biotype

protein_coding

Start-end positions

127021324-127031236

CDS Start-stop positions

127021417-127029964

CDS Relative positions

Sequences

Transcript sequence

TGT ...

Genome browsers

UCSC

Gene

NCBI:71514

Aliases

1110004P21Rik,
2810416M14Rik, 5730453G22Rik, 9030402K04Rik,
AU021830, D4Ertd314e, ENSMUSG00000028820,
Gm12940, MGI:1918764, NCBI:71514,
OFF:Sfpq, PSF, REP1,
Sfpq

Chr 4

ORFs

84 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.
900400	144	AGG ...	RMN ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
553311	144	GTG ...	VDR ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC, NSC
549076	33	CTG ...	LSV ...	Ribo-seq	CTG	moderate	7	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, Brain, E14, MEF, NSC, v6-5
545145	150	CTG ...	LWV ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	NSC
1227607	63	AGG ...	RGP ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
897685	36	AAG ...	KRR ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
164446	159	CTG ...	LLI ...	Ribo-seq	CTG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
900390	138	ATC ...	IQC ...	Ribo-seq	ATC		2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
1229677	186	AAG ...	KPT ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
57632	201	CTG ...	LAA ...	Ribo-seq	CTG	strong	7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Spleen_B_cell, Testis
897517	63	ACG ...	TEN ...	Ribo-seq	ACG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
509972	84	GTG ...	VSS ...	Ribo-seq	GTG		8	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, BMDC, E14, MEF, Neutrophil, Spleen_B_cell, v6-5
897130	66	ATA ...	IKN ...	Ribo-seq	ATA	weak	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
163501	168	ATG ...	MVF ...	Ribo-seq	ATG		13	sORFs_org_Mouse	InCDS Overlapping sORF	B_cell, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
510229	153	CTG ...	LVA ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, NSC, Spleen_B_cell
1226683	78	ATC ...	ISL ...	Ribo-seq	ATC	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
550834	36	ATG ...	MKL ...	Ribo-seq	ATG	moderate	2	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	Glioma, Liver, MEF, MESC, NSC
899771	57	ACG ...	TNF ...	Ribo-seq	ACG	weak	1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
58047	159	CTG ...	LEK ...	Ribo-seq	CTG		15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
1226025	51	AGG ...	RNP ...	Ribo-seq	AGG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
159381	39	CTG ...	LKS ...	Ribo-seq	CTG	weak	10	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, Brain, E14, MEF, NSC, R1E, Spleen_B_cell
898674	30	AGG ...	RNG ...	Ribo-seq	AGG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
59206	108	GTG ...	VGA ...	Ribo-seq	GTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Neutrophil, NSC, Spleen_B_cell, Testis
510393	180	CTG ...	LEV ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF, NSC, R1E, Spleen_B_cell
148424	105	CTG ...	LIS ...	Ribo-seq	CTG		12	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
545407	171	TTG ...	LGR ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
162050	159	CTG ...	LKS ...	Ribo-seq	CTG		13	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
899952	267	ATC ...	IQA ...	Ribo-seq	ATC	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
898011	102	ATA ...	ISQ ...	Ribo-seq	ATA		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
899578	81	ATT ...	ICH ...	Ribo-seq	ATT	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
511009	108	TTG ...	LWM ...	Ribo-seq	TTG	weak	7	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, MEF, NSC, R1E, Spleen_B_cell, v6-5
56968	192	GTG ...	VGL ...	Ribo-seq	GTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF, NSC, R1E, Spleen_B_cell, Testis
511995	174	GTG ...	VAR ...	Ribo-seq	GTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF, NSC, R1E, Spleen_B_cell
512003	69	TTG ...	LSL ...	Ribo-seq	TTG	weak	7	sORFs_org_Mouse	InCDS Overlapping sORF	B_cell, Brain, E14, MEF, NSC, Spleen_B_cell, v6-5
513096	99	CTG ...	LQP ...	Ribo-seq	CTG	moderate	13	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
146105	81	TTG ...	LSM ...	Ribo-seq	TTG	weak	6	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, Brain, MEF, Neutrophil, NSC, Spleen_B_cell
901181	129	ATC ...	IKR ...	Ribo-seq	ATC		1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
899085	93	AGG ...	RMN ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
511430	72	TTG ...	LLS ...	Ribo-seq	TTG	moderate	6	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, MEF, NSC, Spleen_B_cell, v6-5
165569	156	CTG ...	LIS ...	Ribo-seq	CTG		13	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
1233096	171	AAG ...	KMV ...	Ribo-seq	AAG		1	sORFs_org_Mouse	InCDS Overlapping sORF	E14
899871	60	ACG ...	TPG ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
159861	66	ATG ...	MFP ...	Ribo-seq	ATG	weak	12	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
900289	54	AGG ...	RCF ...	Ribo-seq	AGG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
61139	123	TTG ...	LLN ...	Ribo-seq	TTG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
900852	114	ACG ...	TEN ...	Ribo-seq	ACG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
413782	39	CTG ...	LSD ...	Ribo-seq	CTG	weak	10	sORFs_org_Mouse	Alternative sORF Upstream	B_cell, BMDC, C2C12, E14, MEF, Spleen_B_cell, v6-5
512423	69	TTG ...	LCS ...	Ribo-seq	TTG	moderate	13	sORFs_org_Mouse	Alternative sORF Upstream	3T3, BMDC, Brain, E14, Liver, MEF, Neutrophil, R1E, Spleen_B_cell, v6-5
899333	267	ACG ...	TTS ...	Ribo-seq	ACG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
146354	90	ATG ...	MNS ...	Ribo-seq	ATG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
59090	288	GTG ...	VAA ...	Ribo-seq	GTG	strong	8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, R1E, Spleen_B_cell, Testis
1178374	99	ATG ...	MVE ...	Ribo-seq	ATG	strong	1	Johnstone2016	Alternative Downstream Overlapping sORF	Glioma, Liver, MEF, MESC
153545	108	CTG ...	LLI ...	Ribo-seq	CTG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
60011	141	ATG ...	MNS ...	Ribo-seq	ATG		15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
156680	90	ATG ...	MAH ...	Ribo-seq	ATG	strong	6	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, Brain, MEF, Neutrophil, NSC, Spleen_B_cell
512271	87	CTG ...	LFE ...	Ribo-seq	CTG	weak	15	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
898547	48	AAG ...	KFL ...	Ribo-seq	AAG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
147360	75	ATG ...	MNI ...	Ribo-seq	ATG	moderate	6	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, Brain, MEF, Neutrophil, NSC, Spleen_B_cell
159525	72	TTG ...	LLN ...	Ribo-seq	TTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF, Neutrophil, NSC, R1E, v6-5
59208	222	CTG ...	LAV ...	Ribo-seq	CTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF, NSC, R1E, Spleen_B_cell, Testis
900997	99	AAG ...	KFL ...	Ribo-seq	AAG		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
154135	99	TTG ...	LLS ...	Ribo-seq	TTG	moderate	5	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, MEF, Neutrophil, NSC, Spleen_B_cell
509264	102	ATG ...	MIA ...	Ribo-seq	ATG	weak	10	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, NSC, R1E, Spleen_B_cell, v6-5
59349	297	GTG ...	VEE ...	Ribo-seq	GTG	strong	10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, R1E, Spleen_B_cell, Testis
157982	123	TTG ...	LWG ...	Ribo-seq	TTG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
162472	174	TTG ...	LWG ...	Ribo-seq	TTG		14	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
58659	123	GTG ...	VAA ...	Ribo-seq	GTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, NSC, R1E, Spleen_B_cell, Testis
59973	210	CTG ...	LEK ...	Ribo-seq	CTG		15	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
896926	102	ACG ...	TLQ ...	Ribo-seq	ACG	weak	2	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, E14
514002	63	TTG ...	LLP ...	Ribo-seq	TTG	moderate	7	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, Brain, E14, MEF, NSC, Spleen_B_cell, v6-5
898346	75	ATC ...	INS ...	Ribo-seq	ATC	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
512391	33	TTG ...	LKD ...	Ribo-seq	TTG	weak	4	sORFs_org_Mouse	InCDS Overlapping sORF	B_cell, MEF, NSC, Spleen_B_cell
548647	180	CTG ...	LSA ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
511739	150	GTG ...	VAT ...	Ribo-seq	GTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, NSC, Spleen_B_cell
162297	177	ATG ...	MTK ...	Ribo-seq	ATG		16	sORFs_org_Mouse Johnstone2016	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Glioma, Liver, MEF, MESC, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
1233485	237	AAG ...	KPT ...	Ribo-seq	AAG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
57573	111	TTG ...	LPH ...	Ribo-seq	TTG	moderate	14	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, Testis, v6-5
900234	153	ATA ...	ISQ ...	Ribo-seq	ATA		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
897050	138	AGG ...	RVL ...	Ribo-seq	AGG	strong	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC
150856	90	ATG ...	MRP ...	Ribo-seq	ATG		12	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
551456	159	GTG ...	VRV ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	BMDC, NSC
823809	45	ATG ...	MKW ...	Ribo-seq	ATG	weak	4	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC, MEF, Neutrophil, NSC
898984	39	AAG ...	KHL ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
899449	30	ATA ...	IFS ...	Ribo-seq	ATA	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC

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