RetrogeneDB ID:

retro_pvam_1016

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_22710:10994..11529(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL15
Ensembl ID:ENSPVAG00000001771
Aliases:None
Description:ribosomal protein L15 [Source:HGNC Symbol;Acc:10306]


Retrocopy-Parental alignment summary:






>retro_pvam_1016
ATGGGCACTTAAAAGTACATCCAGGAGCTATGGAAGAAGAAGCAGTCGGAAATAATGTGTTTTCTTCTCAGGGAACACTG
CTGGCAGTATCACTTGCTCTCTGCACTCCACAGGGCCCCTGTCCCACCCAGCCCAATAAAGCATGTAGGCTGGGATACAA
GGCCAAGAAAGGTTACGTCATATACCAGATATATATGTGCCATGGTAGCCGCAAATGCTCAGTTCTTAAGGGTAAGATCT
ATAGCAAGCCTGTCCATTATGGTGTTAAACAGCTAATGTTTGCTCTAAGCTTTCAGTCTGTTGCCAAGGAGTGAGCTGGA
CACCACTGTGGGGCTCTGAGAGCCCTGAATTCTTACTGGGTTGGTGAAGATTCCACATATGAATTATGTGAGGTTATTCT
CATTGATCCATTCATTAAGCTATCAGACAGAATCCTGACACCCAGTGGATCACCAGACCAGTCCATAAGCACAGGGAGAT
ACAAGGTCTGATGTCTGCAGGCCACAAGTTTCAACACACTATTGGTAGTTCTCAC

ORF - retro_pvam_1016 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.61 %
Parental protein coverage: 87.25 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMGAYKYIQELWRKKQSDVMRFLLRVRCWQYRQLSALHRAPRP-TRPDKARRLGYKAKQGYVIYRIRVRRG
MG..KYIQELW.KKQS..M.FLLR..CWQY..LSALHRAP.P.T.P.KA.RLGYKAK.GYVIY.I....G
RetrocopyMGT*KYIQELWKKKQSEIMCFLLREHCWQYHLLSALHRAPVP<TQPNKACRLGYKAKKGYVIYQIYMCHG
ParentalGRKRPVPKGATYGKPVHHGVNQLKFARSLQSVAEERAGRHCGALRVLNSYWVGEDSTYKFFEVILIDPF-
.RK..V.KG..Y.KPVH.GV.QL.FA.S.QSVA.E.AG.HCGALR.LNSYWVGEDSTY...EVILIDPF.
RetrocopySRKCSVLKGKIYSKPVHYGVKQLMFALSFQSVAKE*AGHHCGALRALNSYWVGEDSTYELCEVILIDPF<
ParentalHKAIRRNPDTQWITKPVHKHREMRGLTSAGRK-SRGLGKGH
H.AIR.NPDTQWIT.PVHKHRE..GL.SAG.K.....G..H
RetrocopyH*AIRQNPDTQWITRPVHKHREIQGLMSAGHKFQHTIGSSH

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_1016 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 9 parental genes, and 83 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000034976 retrocopies
Callithrix jacchus ENSCJAG0000000381023 retrocopies
Equus caballus ENSECAG000000101571 retrocopy
Procavia capensis ENSPCAG000000119951 retrocopy
Pongo abelii ENSPPYG0000001406518 retrocopies
Pan troglodytes ENSPTRG0000001469514 retrocopies
Pteropus vampyrus ENSPVAG00000001771 13 retrocopies
Tursiops truncatus ENSTTRG000000072445 retrocopies
Vicugna pacos ENSVPAG000000085732 retrocopies



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