Metam
ORF

Logo

Transcript

Transcript

ID CARD

MetamORF ID

8969

ID

ENSMUST00000129611

Name

Col3a1-203

Strand

+

Biotype

retained_intron

Start-end positions

45311538-45325018

CDS Start-stop positions

-

CDS Relative positions

-

Sequences

Transcript sequence

GGA ...

Gene

ID

NCBI:12825

Aliases

AW550625,
Col3a-1, Col3a1, ENSMUSG00000026043,
MGI:88453, NCBI:12825, OFF:Col3a1,
Tsk-2, Tsk2


Chr 1

ORFs

43 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.

1122240 39

CTG ...

LES ...

Ribo-seq
CTG moderate 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
412936 36

CTG ...

LEA ...

Ribo-seq
CTG moderate 5 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF
31482 81

GTG ...

VQS ...

Ribo-seq
GTG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
698696 54

ATG ...

MMS ...

Ribo-seq
ATG weak 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
31533 63

CTG ...

LVS ...

Ribo-seq
CTG 4 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF
1734856 192

CTG ...

LHN ...

Ribo-seq
CTG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
16898 114

ATG ...

MNW ...

Ribo-seq
ATG weak 3 sORFs_org_Mouse
    Intronic
    sORF
MEF
650867 84

CTG ...

LAF ...

Ribo-seq
CTG strong 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
16267 102

CTG ...

LIF ...

Ribo-seq
CTG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
1720383 207

TTG ...

LGC ...

Ribo-seq
TTG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
1719836 45

TTG ...

LEN ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
718085 51

ATG ...

MSS ...

Ribo-seq
ATG moderate 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
1702996 144

TTG ...

LFC ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
1710568 51

CTG ...

LSC ...

Ribo-seq
CTG moderate 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
12320 42

CTG ...

LMA ...

Ribo-seq
CTG 3 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF, Skin_tumor
668813 144

CTG ...

LLL ...

Ribo-seq
CTG 3 sORFs_org_Mouse
    Intronic
    sORF
3T3, MEF
646854 102

CTG ...

LGE ...

Ribo-seq
CTG moderate 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
420542 33

ACG ...

TGP ...

Ribo-seq
ACG strong 1 sORFs_org_Mouse
    Intronic
    sORF
C2C12
653633 48

CTG ...

LAP ...

Ribo-seq
CTG moderate 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
25072 66

GTG ...

VEP ...

Ribo-seq
GTG strong 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
660135 30

GTG ...

VNH ...

Ribo-seq
GTG weak 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
1142948 33

GTG ...

VTQ ...

Ribo-seq
GTG weak 3 sORFs_org_Mouse
    Intronic
    sORF
MEF
8968 39

ATG ...

MAM ...

Ribo-seq
ATG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF, Skin_tumor
643919 57

CTG ...

LGL ...

Ribo-seq
CTG moderate 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
683340 45

CTG ...

LSF ...

Ribo-seq
CTG weak 2 sORFs_org_Mouse
    Intronic
    sORF
3T3, MEF
419518 93

TTG ...

LVS ...

Ribo-seq
TTG optimal 5 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF
11549 75

TTG ...

LCK ...

Ribo-seq
TTG moderate 3 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF
11186 81

ATG ...

MSL ...

Ribo-seq
ATG weak 4 sORFs_org_Mouse
    Intronic
    sORF
MEF
1621766 165

TTG ...

LSK ...

Ribo-seq
TTG 3 sORFs_org_Mouse
    Intronic
    sORF
MEF
699576 42

CTG ...

LEW ...

Ribo-seq
CTG strong 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
1708471 147

TTG ...

LLF ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
413464 90

GTG ...

VTL ...

Ribo-seq
GTG moderate 3 sORFs_org_Mouse
    Intronic
    sORF
3T3, C2C12, MEF
420308 39

GTG ...

VSV ...

Ribo-seq
GTG weak 5 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF
412127 72

AAG ...

KWN ...

Ribo-seq
AAG 1 sORFs_org_Mouse
    Intronic
    sORF
C2C12
58966 30

TTG ...

LAQ ...

Ribo-seq
TTG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
640856 36

ATG ...

MTG ...

Ribo-seq
ATG weak 4 sORFs_org_Mouse
    Intronic
    sORF
3T3, MEF
1730034 51

CTG ...

LCF ...

Ribo-seq
CTG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
1713633 174

ATG ...

MYI ...

Ribo-seq
ATG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
413245 141

ATA ...

ICV ...

Ribo-seq
ATA 1 sORFs_org_Mouse
    Intronic
    sORF
C2C12
1702447 39

TTG ...

LLG ...

Ribo-seq
TTG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
8236 69

ATG ...

MSG ...

Ribo-seq
ATG moderate 5 sORFs_org_Mouse
    Intronic
    sORF
C2C12, MEF
679473 111

CTG ...

LAF ...

Ribo-seq
CTG moderate 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
672880 93

ATG ...

MVT ...

Ribo-seq
ATG strong 1 sORFs_org_Mouse
    Intronic
    sORF
MEF

Export data

Identification method

Predicted

Ribo-seq

MS

Kozak context

moderate

weak

strong

optimal

Start Codon

ORF length

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