Transcript 26878 | MetamORF

Transcript

ID CARD

MetamORF ID

26878

ENSMUST00000067230

Name

Sox4-201

Strand

Biotype

protein_coding

Start-end positions

28948919-28953713

CDS Start-stop positions

28951699-28953021

CDS Relative positions

693-2015

Sequences

Transcript sequence

GGC ...

Genome browsers

UCSC

Gene

NCBI:20677

Aliases

AA682046,
ENSMUSG00000076431, MGI:98366, NCBI:20677,
OFF:Sox4, Sox-4, Sox4

Chr 13

ORFs

59 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.
26877	213	CTG ...	LQW ...	Ribo-seq	CTG	moderate	10	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, MEF, NSC, Testis, v6-5
1302885	138	AAG ...	KLP ...	Ribo-seq	AAG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
671098	135	CTG ...	LPC ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
1303875	162	GTG ...	VGE ...	Ribo-seq	GTG	strong	3	sORFs_org_Mouse	Alternative sORF Upstream	Brain, E14, NSC
670631	84	CTG ...	LAP ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
1301329	33	GTG ...	VRE ...	Ribo-seq	GTG	moderate	2	sORFs_org_Mouse	Alternative sORF Upstream	E14, R1E
1534893	69	GTG ...	VSA ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	Brain
1489956	147	CTG ...	LAR ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	Brain, NSC
336385	39	ATG ...	MEA ...	Ribo-seq	ATG	strong	6	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Glioma, Liver, MEF, MESC, NSC
669582	78	CTG ...	LEA ...	Ribo-seq	CTG	strong	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, MEF, NSC
1490680	63	GTG ...	VIH ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, NSC
672639	60	TTG ...	LHA ...	Ribo-seq	TTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
672132	45	GTG ...	VRW ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
334919	126	ATG ...	MQA ...	Ribo-seq	ATG	weak	10	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, MEF, NSC, R1E, v6-5
668981	48	CTG ...	LWP ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain
1301756	66	ATT ...	IPP ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative sORF Upstream	E14
671673	162	GTG ...	VVA ...	Ribo-seq	GTG	strong	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
672291	78	ATG ...	MLA ...	Ribo-seq	ATG	moderate	5	sORFs_org_Mouse Johnstone2016	Alternative InCDS Overlapping sORF	3T3, Brain, E14, Glioma, Liver, MEF, MESC, NSC
339892	102	TTG ...	LQQ ...	Ribo-seq	TTG	moderate	7	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, MEF, NSC, v6-5
1535400	105	TTG ...	LAA ...	Ribo-seq	TTG	strong	1	sORFs_org_Mouse	sORF Upstream	Brain
420616	153	ATA ...	IHL ...	Ribo-seq	ATA	moderate	3	sORFs_org_Mouse	Alternative sORF Upstream	C2C12, E14, MEF
1490857	189	CTG ...	LQS ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative sORF Upstream	Brain, NSC
671698	126	TTG ...	LRL ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, NSC
1302974	129	ACG ...	TEG ...	Ribo-seq	ACG	strong	1	sORFs_org_Mouse	sORF Upstream	E14
1304401	276	CTG ...	LVS ...	Ribo-seq	CTG	strong	2	sORFs_org_Mouse	Alternative Overlapping sORF Upstream	E14, NSC
671986	216	CTG ...	LVQ ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
670246	150	CTG ...	LLQ ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	sORF Upstream	3T3, Brain, NSC
669497	153	CTG ...	LTT ...	Ribo-seq	CTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3
671586	33	CTG ...	LTT ...	Ribo-seq	CTG	moderate	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14
332040	141	ATG ...	MPV ...	Ribo-seq	ATG	weak	15	sORFs_org_Mouse Johnstone2016	Alternative sORF Upstream	3T3, Brain, C2C12, E14, Glioma, Liver, MEF, MESC, NSC, R1E, v6-5
420620	99	ATA ...	IIA ...	Ribo-seq	ATA	moderate	2	sORFs_org_Mouse	sORF Upstream	C2C12, E14
1535008	81	GTG ...	VRP ...	Ribo-seq	GTG	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain
668280	213	GTG ...	VQD ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
339397	174	TTG ...	LQE ...	Ribo-seq	TTG	weak	10	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, MEF, NSC, R1E, v6-5
420639	276	GTG ...	VRG ...	Ribo-seq	GTG	moderate	8	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, C2C12, E14, MEF, NSC, v6-5
671436	108	CTG ...	LQP ...	Ribo-seq	CTG	moderate	2	sORFs_org_Mouse	Alternative sORF Upstream	3T3, NSC
672760	66	CTG ...	LQE ...	Ribo-seq	CTG	moderate	7	sORFs_org_Mouse	Alternative sORF Upstream	3T3, E14, MEF, NSC, v6-5
669443	159	CTG ...	LHR ...	Ribo-seq	CTG	weak	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
333183	30	TTG ...	LAL ...	Ribo-seq	TTG	strong	10	sORFs_org_Mouse	Alternative sORF Upstream	3T3, B_cell, Brain, E14, MEF, R1E, v6-5
670062	276	GTG ...	VAR ...	Ribo-seq	GTG	strong	2	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, NSC
1302979	129	AAG ...	KLL ...	Ribo-seq	AAG	weak	1	sORFs_org_Mouse	sORF Upstream	E14
1304899	72	ATT ...	IPG ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
420637	42	CTG ...	LFL ...	Ribo-seq	CTG	moderate	11	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, C2C12, E14, MEF, NSC, v6-5
1303516	171	ACG ...	TRR ...	Ribo-seq	ACG	moderate	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
668482	159	CTG ...	LRL ...	Ribo-seq	CTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
672887	234	GTG ...	VAP ...	Ribo-seq	GTG	strong	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, NSC
670647	57	GTG ...	VPA ...	Ribo-seq	GTG	weak	3	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14
671000	120	TTG ...	LPR ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	sORF Upstream	3T3, Brain, NSC
670670	42	TTG ...	LHA ...	Ribo-seq	TTG	weak	8	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, MEF, NSC, v6-5
671351	204	CTG ...	LPV ...	Ribo-seq	CTG	moderate	5	sORFs_org_Mouse	sORF Upstream	3T3, E14, MEF, NSC
670375	120	TTG ...	LED ...	Ribo-seq	TTG	moderate	4	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, NSC
1304008	123	TTG ...	LEA ...	Ribo-seq	TTG	moderate	3	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	Brain, E14, NSC
670596	135	TTG ...	LHQ ...	Ribo-seq	TTG	weak	6	sORFs_org_Mouse	Alternative sORF Upstream	3T3, Brain, E14, MEF, NSC, v6-5
420477	156	ATT ...	IYS ...	Ribo-seq	ATT	weak	2	sORFs_org_Mouse	sORF Upstream	C2C12, E14
333369	123	TTG ...	LRA ...	Ribo-seq	TTG	moderate	6	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, MEF, NSC
1303628	66	ATT ...	ILT ...	Ribo-seq	ATT	weak	1	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	E14
1490060	165	GTG ...	VNC ...	Ribo-seq	GTG	weak	2	sORFs_org_Mouse	sORF Upstream	Brain, NSC
668647	45	CTG ...	LLH ...	Ribo-seq	CTG	moderate	6	sORFs_org_Mouse	Alternative sORF Upstream	3T3, E14, MEF, NSC, v6-5
670816	42	CTG ...	LTT ...	Ribo-seq	CTG	weak	4	sORFs_org_Mouse	Alternative InCDS Overlapping sORF	3T3, Brain, E14, MEF

Export data