RetrogeneDB ID:

retro_pabe_2489

Retrocopy
location
Organism:Orangutan (Pongo abelii)
Coordinates:4:168787562..168787804(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TOMM22
Ensembl ID:ENSPPYG00000011825
Aliases:None
Description:translocase of outer mitochondrial membrane 22 homolog (yeast) [Source:HGNC Symbol;Acc:18002]


Retrocopy-Parental alignment summary:






>retro_pabe_2489
TGGGGCCTGATGGAGATGTTTCCAGAGAGGGCCGGCTCTATGGTCGCAGGTGCATTTGATCTCTCCCTCTTTGTGGCTGA
AAAAACGCACAGGTTTTCCAGGACAACCTTATGGATTGAGACCACTTCCTTTATGATGTGGTTCTTCCTGTTGCTTTTGA
GACTGAGAAGTTGCAAATGGAGCAACCAGGACCGAAACGGCTGCCAGAAGGAATGCCAGGGCCTCACCCTTCACTTCCTG
GA

ORF - retro_pabe_2489 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 59.76 %
Parental protein coverage: 57.04 %
Number of stop codons detected: 0
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalWGLTEMFPERVRSAAGATFDLSLFVAQKMYRFSRAALWIGTTSFMI-LVLPVVFETEKLQMEQQQQLQQR
WGL.EMFPER..S.....FDLSLFVA.K..RFSR..LWI.TTSFM...VLPV.FETEKLQMEQ.......
RetrocopyWGLMEMFPERAGSMVAGAFDLSLFVAEKTHRFSRTTLWIETTSFMM<VVLPVAFETEKLQMEQPGPKRLP
ParentalQILLGPNTGLSG
....GP...L.G
RetrocopyEGMPGPHPSLPG

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 24 .44 RPM
SRP007412_cerebellum 0 .00 RPM 15 .69 RPM
SRP007412_heart 0 .00 RPM 17 .01 RPM
SRP007412_kidney 0 .00 RPM 29 .14 RPM
SRP007412_liver 0 .00 RPM 22 .71 RPM
Pongo abelii was not studied using ChIP-Seq data.
No EST(s) were mapped for retro_pabe_2489 retrocopy.
Pongo abelii was not studied using FANTOM5 data.
retro_pabe_2489 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_pabe_2489 has 2 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_3003
Pan troglodytes retro_ptro_2031

Parental genes homology:
Parental genes homology involve 23 parental genes, and 85 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000106923 retrocopies
Canis familiaris ENSCAFG000000013832 retrocopies
Callithrix jacchus ENSCJAG000000117315 retrocopies
Cavia porcellus ENSCPOG000000059631 retrocopy
Equus caballus ENSECAG000000103591 retrocopy
Erinaceus europaeus ENSEEUG000000064281 retrocopy
Echinops telfairi ENSETEG000000005447 retrocopies
Homo sapiens ENSG000001002166 retrocopies
Gorilla gorilla ENSGGOG000000132304 retrocopies
Macropus eugenii ENSMEUG000000029011 retrocopy
Microcebus murinus ENSMICG000000117923 retrocopies
Myotis lucifugus ENSMLUG000000037612 retrocopies
Macaca mulatta ENSMMUG000000003648 retrocopies
Mustela putorius furoENSMPUG000000131562 retrocopies
Mus musculus ENSMUSG000000224272 retrocopies
Nomascus leucogenys ENSNLEG000000151596 retrocopies
Otolemur garnettii ENSOGAG000000295839 retrocopies
Pongo abelii ENSPPYG00000011825 6 retrocopies
Pan troglodytes ENSPTRG000000143746 retrocopies
Rattus norvegicus ENSRNOG000000140584 retrocopies
Sus scrofa ENSSSCG000000000971 retrocopy
Tupaia belangeri ENSTBEG000000156834 retrocopies
Vicugna pacos ENSVPAG000000014851 retrocopy



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