RetrogeneDB ID:

retro_cjac_3642

Retrocopy
location
Organism:Marmoset (Callithrix jacchus)
Coordinates:ACFV01191595.1:781..1008(-)
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:ENSCJAG00000017243
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cjac_3642
TTCTTTTTTTTGAAACAGGATTTCATTCTGGCACCCAGGCTAGAGTGCAGCGGTGTGATCATAGCTCATTTAGCTCCTTT
CAGCCTTGATCTCTCAGGCTCAAGTGATCCTCCCTCTTAGCCTCCCAAGTAGCTGGGACTACAGTTATGTGCCACCATGC
TTGGCTAAGTTTTTTTAAAAATTTTTTAGCAAGAGATGAGGCCTTGCTATATTGCCCAGGCTGGTCT

ORF - retro_cjac_3642 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 54.55 %
Parental protein coverage: 73.74 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalFLFLRWSLTLSPKLECSGTILAHC---NLRLQGSSDSPA-SASQVAGITGTRHHAWLIFISYWLHRNGVS
F.FL.....L.P.LECSG.I.AH.....L.L.GSSD.P...ASQVAG.T...HHAWL.F....L.R....
RetrocopyFFFLKQDFILAPRLECSGVIIAHLAPFSLDLSGSSDPPS<LASQVAGTTVMCHHAWLSFFKNFLARDEAL
ParentalLYCPGWS
LYCPGWS
RetrocopyLYCPGWS

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 .02 RPM
SRP051959_heart 0 .00 RPM 0 .00 RPM
SRP051959_kidney 0 .00 RPM 0 .02 RPM
SRP051959_liver 0 .00 RPM 0 .00 RPM
SRP051959_lung 0 .00 RPM 0 .02 RPM
SRP051959_lymph_node 0 .00 RPM 0 .00 RPM
SRP051959_skeletal_muscle 0 .02 RPM 0 .00 RPM
SRP051959_spleen 0 .00 RPM 0 .00 RPM
Callithrix jacchus was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_cjac_3642 retrocopy.
Callithrix jacchus was not studied using FANTOM5 data.
retro_cjac_3642 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_cjac_3642 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 3 parental genes, and 19 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG00000017243 14 retrocopies
Callithrix jacchus ENSCJAG000000337152 retrocopies
Callithrix jacchus ENSCJAG000000367303 retrocopies



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