RetrogeneDB ID:

retro_pvam_67

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_122:114787..115413(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:MRPL1
Ensembl ID:ENSPVAG00000002696
Aliases:None
Description:mitochondrial ribosomal protein L1 [Source:HGNC Symbol;Acc:14275]


Retrocopy-Parental alignment summary:






>retro_pvam_67
TCATATCCCTTTATGGAAGGTGAACCTGAGGATGATGTTTACTTAAAATGCCTATATCCAAGGCAGATATATGAGATGGA
GAAGCTCTTCACTTACTTAAGAAATTTCAAATTCTGGACCTTACAAATCCAAAGCAAGGTGTTTATCTTGATTTGACACT
GGATATGGCACTGAGAAAGAAGAAAAAAGTGGAACCATTTGCCAGTGTTCTTATTTTTCCATGCCAACTTGCTTCAGAAA
TCAATAAAGTTGCTGTATTTACAGGGAATGCATCAGAGATTAAAATAGCAGGAGAAAATGGAGCTGCATTTGTAGGAGGA
ACTAATCTGATCCGGAAGATTTTGGATGACGAAATTCAGTCAGACTATTATGTAGCTGTTCCATAAATAATGCCCGAGCT
TAATCCATTAAAGAAGAAACTGAAAAAAAAGATTTCCAAAGCTTACTCGAAATTCCATTGGCTGTGACATCCCCAAAATT
CTTGAATATTTAAAACTGGACATGAAATTAAAGTAGATGAAGAAAGGGAGAGTTTTCTTGAGACAAAAATAGCAACACTA
TATATGTCAAGTGACCAGATAGCTGCCAATTTGCAAGCAGTTAACAATGAAGTTTGTAGACACAGA

ORF - retro_pvam_67 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.85 %
Parental protein coverage: 64.31 %
Number of stop codons detected: 1
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalSYPFMEGEPEDDVYLKRLYPRQIYEVKK-AIHLLKKFQILDFTNPKQGVYLDLTLDIALGKKKKVEPFAS
SYPFMEGEPEDDVYLK.LYPRQIYE..K.A.HLLKKFQILD.TNPKQGVYLDLTLD.AL.KKKKVEPFAS
RetrocopySYPFMEGEPEDDVYLKCLYPRQIYEMEK<ALHLLKKFQILDLTNPKQGVYLDLTLDMALRKKKKVEPFAS
ParentalVLSFPYPFTSEINKVAVFTGNASEIKIAEENGAAFAGGTNLIQKILDDEIQSDYYVAVPEIMPELNPLKK
VL.FP....SEINKVAVFTGNASEIKIA.ENGAAF.GGTNLI.KILDDEIQSDYYVAVP.IMPELNPLKK
RetrocopyVLIFPCQLASEINKVAVFTGNASEIKIAGENGAAFVGGTNLIRKILDDEIQSDYYVAVP*IMPELNPLKK
ParentalKL-KKRFPKFTRNSIGRDIPKMLE-LFKTGHEIKVDEERENFLKTKIATLDMSSDQIAANLQAVINEVCR
KL....FPK.TRNSIG.DIPK.LE..FKTGHEIKVDEERE.FL.TKIATL.MSSDQIAANLQAV.NEVCR
RetrocopyKL>XXXFPKLTRNSIGCDIPKILE<IFKTGHEIKVDEERESFLETKIATLYMSSDQIAANLQAVNNEVCR
ParentalHR
HR
RetrocopyHR

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






Pteropus vampyrus was not studied using RNA-Seq expression data.
Pteropus vampyrus was not studied using ChIP-Seq data.
Pteropus vampyrus was not studied using EST data.
Pteropus vampyrus was not studied using FANTOM5 data.
retro_pvam_67 was not experimentally validated.

Retrocopy orthology:
Pteropus vampyrus does not belong to any of the species groups (eutheria, teleost or neognath), studied for retrocopy-based homology. For more information about studied groups, please go to help section.

Parental genes homology:
Parental genes homology involve 4 parental genes, and 6 retrocopies.

Species Parental gene accession Retrocopies number
Equus caballus ENSECAG000000245111 retrocopy
Myotis lucifugus ENSMLUG000000110112 retrocopies
Pteropus vampyrus ENSPVAG00000002696 2 retrocopies
retro_pvam_67 , retro_pvam_913,
Tursiops truncatus ENSTTRG000000118991 retrocopy



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