Transcript 9622 | MetamORF

Transcript

ID CARD

MetamORF ID

9622

ENSMUST00000171158

Name

Sdc1-205

Strand

Biotype

protein_coding

Start-end positions

8771413-8793062

CDS Start-stop positions

8771636-8791807

CDS Relative positions

Sequences

Transcript sequence

GCG ...

Genome browsers

UCSC

Gene

NCBI:20969

Aliases

AA408134,
AA409076, CD138, ENSMUSG00000020592,
MGI:1349162, NCBI:20969, OFF:Sdc1,
Sdc1, Sstn, syn-1,
Synd, Synd1

Chr 12

ORFs

34 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.
10020	201	CTG ...	LAS ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, R1E, Skin_tumor
663916	54	CTG ...	LSC ...	Ribo-seq	CTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, MEF
9957	114	CTG ...	LTI ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, Skin_tumor, v6-5
1296864	54	AGG ...	RME ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
10016	141	GTG ...	VWR ...	Ribo-seq	GTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor, v6-5
9777	87	GTG ...	VAA ...	Ribo-seq	GTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, Skin_tumor, v6-5
9621	189	CTG ...	LSH ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, Skin_tumor
10075	96	ATG ...	MEL ...	Ribo-seq	ATG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor, v6-5
10081	132	GTG ...	VAA ...	Ribo-seq	GTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor, v6-5
10002	168	CTG ...	LVN ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, Skin_tumor
9680	45	CTG ...	LPI ...	Ribo-seq	CTG		11	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, NSC, Skin_tumor, v6-5
9862	147	ATG ...	MRP ...	Ribo-seq	ATG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, Skin_tumor, v6-5
9813	39	TTG ...	LKH ...	Ribo-seq	TTG	weak	7	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor
9967	30	CTG ...	LGR ...	Ribo-seq	CTG	moderate	4	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, MEF, R1E, Skin_tumor
9959	60	TTG ...	LSR ...	Ribo-seq	TTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, NSC, Skin_tumor, v6-5
661963	141	GTG ...	VPG ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Alternative Downstream Overlapping sORF	3T3, Liver, MEF
9898	75	CTG ...	LSS ...	Ribo-seq	CTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, Skin_tumor, v6-5
9996	90	CTG ...	LPI ...	Ribo-seq	CTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor, v6-5
665410	63	GTG ...	VLC ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Liver
10046	120	CTG ...	LSS ...	Ribo-seq	CTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor, v6-5
10004	192	ATG ...	MRP ...	Ribo-seq	ATG		10	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Glioma, Liver, MEF, MESC, R1E, Skin_tumor
9772	51	ATG ...	MEL ...	Ribo-seq	ATG		12	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, NSC, R1E, Skin_tumor, v6-5
10088	159	CTG ...	LTI ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor
9871	291	GTG ...	VAV ...	Ribo-seq	GTG	moderate	4	sORFs_org_Mouse	InCDS Overlapping sORF	3T3, E14, Liver, Skin_tumor
9749	156	CTG ...	LAS ...	Ribo-seq	CTG		6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, Skin_tumor
9944	66	CTG ...	LLL ...	Ribo-seq	CTG	moderate	5	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Liver, MEF, Skin_tumor
662273	39	TTG ...	LLC ...	Ribo-seq	TTG	weak	9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, E14, Liver, MEF, v6-5
9915	294	CTG ...	LLG ...	Ribo-seq	CTG		7	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, Skin_tumor
9921	96	GTG ...	VWR ...	Ribo-seq	GTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, Skin_tumor, v6-5
665853	36	CTG ...	LCA ...	Ribo-seq	CTG	weak	8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Brain, Liver, MEF, v6-5
1300544	99	AGG ...	RME ...	Ribo-seq	AGG		1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
10079	105	TTG ...	LSR ...	Ribo-seq	TTG		10	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, Liver, MEF, R1E, Skin_tumor, v6-5
9983	234	CTG ...	LSH ...	Ribo-seq	CTG		8	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, Skin_tumor
9860	123	CTG ...	LVN ...	Ribo-seq	CTG		9	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, BMDC, E14, Liver, MEF, NSC, Skin_tumor, v6-5

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