Transcript 9578 | MetamORF

Transcript

ID CARD

MetamORF ID

9578

ENSMUST00000109072

Name

Skp1a-203

Strand

Biotype

protein_coding

Start-end positions

52232189-52246858

CDS Start-stop positions

52236837-52246020

CDS Relative positions

Sequences

Transcript sequence

GGA ...

Genome browsers

UCSC

Gene

NCBI:21402

Aliases

15kDa,
2610043E24Rik, 2610206H23Rik, EMC19,
ENSMUSG00000036309, MGI:103575, NCBI:21402,
OCP-II, OCP2, OFF:Skp1,
p19A, p19Skp1, Skp1,
Skp1a, Tceb1l

Chr 11

ORFs

25 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.
91525	48	TTG ...	LTK ...	Ribo-seq	TTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, MEF, NSC, Testis
20259	81	ATG ...	MTL ...	Ribo-seq	ATG	moderate	9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, Liver, MEF, Neutrophil, NSC, Testis
1597370	69	CTG ...	LNK ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Downstream sORF	MEF
22135	66	CTG ...	LRM ...	Ribo-seq	CTG	weak	6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Liver, MEF, Neutrophil, NSC, Testis
1338786	42	ATG ...	MIL ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, NSC
21133	54	ATG ...	MKE ...	Ribo-seq	ATG	moderate	7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, MEF, NSC, Testis, v6-5
21688	57	ATG ...	MKT ...	Ribo-seq	ATG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, Neutrophil, Testis
23105	87	ATG ...	MTL ...	Ribo-seq	ATG		11	sORFs_org_Mouse	Downstream Overlapping sORF	3T3, Brain, E14, Liver, MEF, NSC, R1E, Testis, v6-5
1123495	30	CTG ...	LME ...	Ribo-seq	CTG	moderate	5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, NSC, v6-5
938001	117	AGG ...	RRF ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Downstream Overlapping sORF	BMDC
20771	33	ATG ...	MTL ...	Ribo-seq	ATG		10	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, MEF, Neutrophil, NSC, R1E, Testis, v6-5
1601785	42	TTG ...	LWF ...	Ribo-seq	TTG	moderate	1	sORFs_org_Mouse	Alternative Downstream sORF	MEF
1340722	45	ATG ...	MMI ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, MEF, NSC
889318	36	GTG ...	VKR ...	Ribo-seq	GTG	moderate	6	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	Liver, MEF, NSC, R1E, v6-5
9577	48	TTG ...	LTK ...	Ribo-seq	TTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, MEF, NSC, Skin_tumor, Testis
1529947	36	CTG ...	LFL ...	Ribo-seq	CTG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
20278	66	CTG ...	LRR ...	Ribo-seq	CTG		3	sORFs_org_Mouse	InCDS Overlapping sORF	MEF, NSC, Testis
890316	30	ATG ...	MSH ...	Ribo-seq	ATG	weak	7	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, Liver, MEF, Neutrophil, NSC, v6-5
419744	45	ATC ...	ICD ...	Ribo-seq	ATC		2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	C2C12, MEF
91244	60	ATG ...	MMK ...	Ribo-seq	ATG	moderate	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, MEF, Neutrophil, Testis
889159	33	TTG ...	LMS ...	Ribo-seq	TTG	weak	7	sORFs_org_Mouse	InCDS Overlapping sORF	Brain, E14, Liver, MEF, Neutrophil, NSC, v6-5
20793	57	ATG ...	MMK ...	Ribo-seq	ATG	weak	8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, Liver, MEF, NSC, Testis, v6-5
23669	120	CTG ...	LRR ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Downstream Overlapping sORF	3T3, Brain, MEF, NSC, Testis, v6-5
419189	33	ATC ...	ICD ...	Ribo-seq	ATC		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	MEF
975280	33	AAG ...	KRS ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	MEF

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