RetrogeneDB ID:

retro_pabe_3220

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:7_random:6185985..6186300(-)
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:ENSPPYG00000019993
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_pabe_3220
GGCAGCATCTCCAGACCCAGAACTTCCTCAAGTGGGCCTCTCCAGGCCCAGCTCTTCCTCCTGGTGGCCGCTGCAGGCCC
AGACTGTTGTCAAGTCGGCCTGTCCAGGGTCAGCTCCTGCCTCCCAGCGGCCTCTGCAGGCCCAGGTCGTCCTCAAGTCA
GCCTCCACAGGCCCAGTTCCAGCCTCTCGGCGGCCTCTCCGGGTGCAAAAGTTCCTCGAGTCAGCCTCTCCAGACCCAGC
TCCTCCTGCCTCCCAGTGGCCTCTTTCAGCCCAGCCCAGCTCATGCCTCCTGGCGGCCTTCCCAGGCCCCGCTTT

ORF - retro_pabe_3220 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.49 %
Parental protein coverage: 52.02 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalGPIPAPTTSLDSAPAQ----LPAALVGPQLPHGGLARLSSCPPKPSPGPKRRPQVSLPGPSSVLSAASPG
G.I..P.TS..S.P.Q....L..A..GP.....GL.R.SSC.P..S.GP.R.PQVSL..PSS.LSAASPG
RetrocopyGSISRPRTS-SSGPLQAQLFLLVAAAGPDCCQVGLSRVSSCLPAASAGPGR-PQVSLHRPSSSLSAASPG
ParentalAKLPQVSLSRPSSSCLPVASFGPAQLMALGGLPRPWF
AK.P.VSLSRPSSSCLPVASF.PAQLM..GGLPRP.F
RetrocopyAKVPRVSLSRPSSSCLPVASFSPAQLMPPGGLPRPRF

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
SRP007412_brain_prefrontal_cortex 0 .00 RPM 0 .11 RPM
SRP007412_cerebellum 0 .00 RPM 0 .00 RPM
SRP007412_heart 0 .00 RPM 0 .00 RPM
SRP007412_kidney 0 .00 RPM 0 .20 RPM
SRP007412_liver 0 .00 RPM 0 .24 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_3220 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_3220 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_3220 has 0 orthologous retrocopies within eutheria group .


Parental genes homology:
Parental genes homology involve 3 parental genes, and 8 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000325652 retrocopies
Gorilla gorilla ENSGGOG000000278831 retrocopy
Pongo abelii ENSPPYG00000019993 5 retrocopies



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