Metam
ORF

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Open Reading Frame (ORF)

ORF

ID CARD

MetamORF ID

3399988

Chromosome

1

Strand

+

Start-stop positions

26545901-26574201

Nucleic length (bp)

2235

Sequences

Nucleic sequence

ATG ...

Amino acid sequence

MEQ ...

Spliced: Yes

Exons

21

Exons start-end

26545901-26546035
26546867-26546983
26547189-26547270
26551397-26551477
26551644-26551723
26553391-26553497
26554214-26554251
26554596-26554738
26555151-26555221
26555537-26555625
26556654-26556718
26556998-26557100
26558807-26558937
26560726-26560851
26561045-26561134
26561505-26561663
26571449-26571610
26571849-26571925
26572176-26572293
26573224-26573361
26574079-26574201

Transcripts

1 known transcript

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.

245155 ENST00000531382 protein_coding HGNC:10430 - Ribo-seq
1 Johnstone2016
    CDS
Brain_tumor,
HEK293, HeLa, HFF
3399971 UNKNOWN_TRANSCRIPT HGNC:10430 - Ribo-seq
1 Erhard2018
HFF

Export data

Identification method

Predicted

Ribo-seq

MS

Kozak context

moderate

weak

strong

optimal

Transcript biotype

antisense

antisense_RNA

lincRNA

non_stop_decay

nonsense_mediated_decay

polymorphic_pseudogene

processed_pseudogene

processed_transcript

protein_coding

retained_intron

sense_intronic

sense_overlapping

TEC

transcribed_processed_pseudogene

transcribed_unitary_pseudogene

transcribed_unprocessed_pseudogene

unitary_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

B_cell

BJ

Blood

Brain

Brain_tumor

Breast

Flp-In_T-REx-293

guo_2014

HAP1

HCT116

HEK293

HEK293T

HeLa

hES

HFF

Jurkat

LCL

loayza_puch_2016

MDA-MB-231

MM1S

Monocyte

NCCIT

RPE-1

Skeletal_muscle

THP-1

U2OS