Metam
ORF

Logo

Transcript

Transcript

ID CARD

MetamORF ID

7545

ID

ENSMUST00000194940

Name

Capn2-204

Strand

-

Biotype

retained_intron

Start-end positions

182470214-182479807

CDS Start-stop positions

-

CDS Relative positions

-

Sequences

Transcript sequence

CAA ...

Gene

ID

NCBI:12334

Aliases

AI326419,
CALP80, Capa-2, Capa2,
Capn2, ENSMUSG00000026509, m-calpain,
m-calpin, MGI:88264, NCBI:12334,
OFF:Capn2


Chr 1

ORFs

16 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.

964033 78

ATC ...

ILR ...

Ribo-seq
ATC 1 sORFs_org_Mouse
    Intronic
    sORF
BMDC
1678407 105

ATG ...

MSI ...

Ribo-seq
ATG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
679724 42

ATG ...

MDS ...

Ribo-seq
ATG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
1644500 84

ATG ...

MVP ...

Ribo-seq
ATG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
588661 48

TTG ...

LTM ...

Ribo-seq
TTG 3 sORFs_org_Mouse
    Intronic
    sORF
BMDC, MEF
905674 51

ATT ...

ILC ...

Ribo-seq
ATT 1 sORFs_org_Mouse
    Intronic
    sORF
BMDC
7544 69

TTG ...

LTP ...

Ribo-seq
TTG 6 sORFs_org_Mouse
    Intronic
    sORF
BMDC, Brain, MEF,
Skin_tumor
1006835 102

GTG ...

VDR ...

Ribo-seq
GTG 1 sORFs_org_Mouse
    Intronic
    sORF
Brain
721141 60

ATG ...

MRR ...

Ribo-seq
ATG 4 sORFs_org_Mouse
    Intronic
    sORF
BMDC, MEF
997968 162

CTG ...

LPC ...

Ribo-seq
CTG 3 sORFs_org_Mouse
    Intronic
    sORF
BMDC, Brain, Liver
1304893 57

TTG ...

LTI ...

Ribo-seq
TTG 3 sORFs_org_Mouse
    Intronic
    sORF
E14, MEF
1411077 75

CTG ...

LKE ...

Ribo-seq
CTG 1 sORFs_org_Mouse
    Intronic
    sORF
R1E
931642 66

ACG ...

TPM ...

Ribo-seq
ACG 1 sORFs_org_Mouse
    Intronic
    sORF
BMDC
1708658 48

TTG ...

LCG ...

Ribo-seq
TTG 1 sORFs_org_Mouse
    Intronic
    sORF
MEF
1700441 96

TTG ...

LRV ...

Ribo-seq
TTG 2 sORFs_org_Mouse
    Intronic
    sORF
MEF
937446 54

AGG ...

RTL ...

Ribo-seq
AGG 1 sORFs_org_Mouse
    Intronic
    sORF
BMDC

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