Metam
ORF

Logo

Open Reading Frame (ORF)

ORF

ID CARD

MetamORF ID

723104

Chromosome

1

Strand

-

Start-stop positions

153249635-153249724

Nucleic length (bp)

90

Sequences

Nucleic sequence

ATG ...

Amino acid sequence

MGR ...

Spliced: No

Exons

1

Exons start-end

Transcripts

2 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.

952214 UNKNOWN_TRANSCRIPT NCBI:226519 - Predicted
1 Samandi2017
    sORF

90 ENSMUST00000027752 protein_coding NCBI:226519 1959 - 2048 Ribo-seq
TGAGTTATGG strong 3 sORFs_org_Mouse
Johnstone2016
    Alternative
    InCDS
    Overlapping
    sORF
3T3,
Glioma, Liver, MEF,
MESC, R1E
411839 ENSMUST00000159251 retained_intron NCBI:226519 229 - 318 Ribo-seq
TGAGTTATGG strong 2 sORFs_org_Mouse
    Intronic
    sORF
E14

Export data

Identification method

Predicted

Ribo-seq

MS

Kozak context

moderate

weak

strong

optimal

Transcript biotype

antisense

antisense_RNA

bidirectional_promoter_lncRNA

IG_C_gene

lincRNA

non_stop_decay

nonsense_mediated_decay

polymorphic_pseudogene

processed_pseudogene

processed_transcript

protein_coding

pseudogene

retained_intron

sense_intronic

sense_overlapping

TEC

transcribed_processed_pseudogene

transcribed_unitary_pseudogene

transcribed_unprocessed_pseudogene

unprocessed_pseudogene

ORF Annotations

Reading frame

Alternative

Relative position

CDS

Downstream

InCDS

Intronic

NewCDS

Overlapping

Upstream

Biotype

Intergenic

ncRNA

NMD

NSD

Pseudogene

Length

sORF

Cell types

3T3

B_cell

BMDC

Brain

C2C12

E14

Glioma

Liver

MEF

MESC

Neutrophil

NSC

R1E

Skin_tumor

Spleen_B_cell

Testis

v6-5