Transcript 210602

Transcript

ID CARD

MetamORF ID

210602

ENSMUST00000020077

Name

Lims1-201

Strand

Biotype

protein_coding

Start-end positions

58394373-58421783

CDS Start-stop positions

58394419-58421455

CDS Relative positions

Sequences

Transcript sequence

GTA ...

Genome browsers

UCSC

Gene

NCBI:110829

Aliases

2310016J22Rik,
4921524A02Rik, AI507642, AU021743,
AW551584, C430041B13Rik, ENSMUSG00000019920,
Lims1, Lims1l, MGI:1195263,
NCBI:110829, OFF:Lims1, PINCH,
PINCH1

Chr 10

ORFs

37 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.
210601	78	GTG ...	VKN ...	Ribo-seq	GTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, E14, MEF, NSC, v6-5
636866	162	ATG ...	MPW ...	Ribo-seq	ATG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, NSC, v6-5
568429	33	TTG ...	LFP ...	Ribo-seq	TTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, v6-5
70931	54	TTG ...	LEL ...	Ribo-seq	TTG	moderate	7	sORFs_org_Mouse	Downstream sORF	E14, MEF, Neutrophil, R1E, v6-5
638929	72	CTG ...	LPG ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	NSC
636489	99	TTG ...	LGI ...	Ribo-seq	TTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, MEF, v6-5
290059	117	GTG ...	VNK ...	Ribo-seq	GTG		15	sORFs_org_Mouse	Downstream Overlapping sORF	3T3, B_cell, BMDC, Brain, E14, Liver, MEF, Neutrophil, NSC, R1E, Spleen_B_cell, v6-5
290154	129	TTG ...	LFV ...	Ribo-seq	TTG		5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, MEF, NSC, v6-5
422600	45	GTG ...	VSA ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Neutrophil
1336456	48	CTG ...	LLC ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
596033	33	GTG ...	VMF ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
559071	45	ATG ...	MCS ...	Ribo-seq	ATG	weak	2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, v6-5
530228	42	GTG ...	VLR ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative Downstream sORF	MEF
765997	87	ATG ...	MRN ...	Ribo-seq	ATG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell, BMDC, Brain, MEF, Neutrophil, NSC
636042	72	GTG ...	VKK ...	Ribo-seq	GTG	moderate	1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
507764	33	ATG ...	MPW ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
564387	54	GTG ...	VLR ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	InCDS Overlapping sORF	NSC, v6-5
921616	57	ATC ...	IAI ...	Ribo-seq	ATC		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
929334	93	ATC ...	IAI ...	Ribo-seq	ATC		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14
638222	108	ATG ...	MLA ...	Ribo-seq	ATG		1	sORFs_org_Mouse	InCDS Overlapping sORF	v6-5
507757	54	GTG ...	VPR ...	Ribo-seq	GTG	weak	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF, Neutrophil, NSC
271181	48	ATG ...	MRG ...	Ribo-seq	ATG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, E14, MEF, NSC, v6-5
68592	105	GTG ...	VEF ...	Ribo-seq	GTG	moderate	9	sORFs_org_Mouse	Downstream sORF	BMDC, E14, MEF, Neutrophil, NSC, R1E, v6-5
206806	63	TTG ...	LGI ...	Ribo-seq	TTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, E14, MEF, NSC, v6-5
220579	87	GTG ...	VPN ...	Ribo-seq	GTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, MEF, NSC, v6-5
592495	36	GTG ...	VLP ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, v6-5
1336502	60	CTG ...	LVC ...	Ribo-seq	CTG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
905940	69	ATG ...	MIS ...	Ribo-seq	ATG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC
925323	75	ATC ...	IVK ...	Ribo-seq	ATC	strong	1	sORFs_org_Mouse	InCDS Overlapping sORF	BMDC
764480	96	GTG ...	VIF ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	B_cell, BMDC, Neutrophil
434498	66	ATG ...	MPW ...	Ribo-seq	ATG	weak	5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, Neutrophil, NSC
213179	93	TTG ...	LFV ...	Ribo-seq	TTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, E14, MEF, NSC, v6-5
290798	114	GTG ...	VKN ...	Ribo-seq	GTG		4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, MEF, v6-5
65178	48	CTG ...	LKK ...	Ribo-seq	CTG	moderate	7	sORFs_org_Mouse	Downstream sORF	E14, MEF, Neutrophil, R1E, v6-5
637588	105	CTG ...	LAD ...	Ribo-seq	CTG		1	sORFs_org_Mouse	InCDS Overlapping sORF	v6-5
638538	84	ATG ...	MRG ...	Ribo-seq	ATG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, MEF, v6-5
289296	123	GTG ...	VPN ...	Ribo-seq	GTG		3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	BMDC, Brain, v6-5

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