Open Reading Frame (ORF)
ORF
ID CARD
MetamORF ID
852901
Chromosome
1
Strand
+
Start-stop positions
88218357-88218395
Nucleic length (bp)
39
Sequences
Nucleic sequence
ATG ...
Amino acid sequence
MAA ...
Spliced: No
Exons
1
Exons start-end
Genome browsers
Transcripts
10 known transcripts
|
MetamORF transcript ID The MetamORF ID of the transcript. This is an arbitrary ID that does not correspond to any official (Ensembl, NCBI...) transcript ID or external reference. |
Transcript ID The official transcript ID (usually an Ensembl ID, e.g. ENST00000395565). |
Transcript biotype
The biotype of the transcript (as defined by Ensembl). |
Gene ID
The gene ID. Usually the HGNC ID for H. sapiens genes and the NCBI ID for M. musculus genes. |
Relative positions The relative positions of the start and stop codons of the ORF on the transcript. |
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 flanking sequence The sequence flanking the start codon of the ORF on the transcript. This sequence registered the nucleotides from -6 to +4 positions, where +1 corresponds to the first nucleotide of the ORF start codon. |
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. |
| 584836 | ENSMUST00000113142 | protein_coding | NCBI:394430 | 1597 - 1635 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 21160 | ENSMUST00000113139 | protein_coding | NCBI:613123 | 1580 - 1618 |
Ribo-seq |
GTGCCTATGG | moderate | 2 |
sORFs_org_Mouse
|
|
BMDC,
Liver |
| 7950 | ENSMUST00000126203 | nonsense_mediated_decay | NCBI:394432 | 773 - 811 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 2895450 | ENSMUST00000073772 | protein_coding | NCBI:394434 | 1550 - 1588 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 1397708 | ENSMUST00000073049 | protein_coding | NCBI:394436 | 1584 - 1622 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 2895478 | ENSMUST00000113139 | protein_coding | ENSMUSG00000089675 | 1580 - 1618 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 1038125 | ENSMUST00000014263 | protein_coding | NCBI:94284 | 1625 - 1663 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 202847 | ENSMUST00000049289 | protein_coding | NCBI:22236 | 1571 - 1609 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
| 978362 | ENSMUST00000097659 | protein_coding | NCBI:394433 | 1563 - 1601 |
Ribo-seq |
GTGCCTATGG | moderate | 2 |
sORFs_org_Mouse
Johnstone2016 |
|
Glioma,
Liver, MEF, MESC |
| 2895508 | ENSMUST00000113137 | protein_coding | NCBI:394435 | 1609 - 1647 |
Ribo-seq |
GTGCCTATGG | moderate | 1 |
Johnstone2016
|
|
Glioma,
Liver, MEF, MESC |
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