RetrogeneDB ID:

retro_cjac_3782

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:ACFV01201136.1:1507..1669(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCJAG00000013317
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_3782
TCTCGCCAATCTCCACCTCCCGAGTTCAAGTGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGCACCTGCC
TTTACGCCGGGCCATTTTTTTTGTATTTTTAGTAGAGACAGAGTTTCACCATGTTGGCGAAGCTGGTCTCAAACTCTTGA
CC

ORF - retro_cjac_3782 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.67 %
Parental protein coverage: 76.06 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSPQPLPPGFGQFSCLSLLSSWDYRHTPPCPANFLVFVLETGFHHIGQAGLELLT
S.Q..PP.F..FSCLSLLSSWDYRH.P...A.F.VF..ET.FHH.G.AGL.LLT
RetrocopySRQSPPPEFK*FSCLSLLSSWDYRHLPLRRAIFFVFLVETEFHHVGEAGLKLLT

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP051959_colon 0 .00 RPM 0 .00 RPM
SRP051959_heart 0 .00 RPM 0 .00 RPM
SRP051959_kidney 0 .00 RPM 0 .00 RPM
SRP051959_liver 0 .00 RPM 0 .00 RPM
SRP051959_lung 0 .00 RPM 0 .05 RPM
SRP051959_lymph_node 0 .00 RPM 0 .05 RPM
SRP051959_skeletal_muscle 0 .00 RPM 0 .02 RPM
SRP051959_spleen 0 .00 RPM 0 .02 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3782 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3782 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_3782 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 8 parental genes, and 119 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG0000000147830 retrocopies
Callithrix jacchus ENSCJAG0000000478125 retrocopies
Callithrix jacchus ENSCJAG00000013317 22 retrocopies
Callithrix jacchus ENSCJAG000000340742 retrocopies
Callithrix jacchus ENSCJAG000000344572 retrocopies
Callithrix jacchus ENSCJAG0000003764034 retrocopies
Callithrix jacchus ENSCJAG000000377692 retrocopies
Callithrix jacchus ENSCJAG000000379962 retrocopies



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