RetrogeneDB ID:

retro_pvam_572

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3858:161412..161740(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL12
Ensembl ID:ENSPVAG00000000925
Aliases:None
Description:ribosomal protein L12 [Source:HGNC Symbol;Acc:10302]


Retrocopy-Parental alignment summary:






>retro_pvam_572
ATGCCACCGAAGTTCGGCCCCAAGGAGATCGGAGCTCTATAGCTGAGGTGCGCCCGTGGGGAAATCGGTGCCACGTCGGC
CCCGGCCCCCAAGGTCAGCCCCTGGGCCCGTCTCCAGAAAAGGTTGGTGATGACATCGCCAAAGCAACCGGTGACCGGAT
CACAGCGAACTGACCACTCGGAACAGACAGGCCCAGACTGTGCCTGGTGCCTCCGCCCTGATCATCATCAGGGCCCGCGA
AGCACCGCCCGGGGCCAGAGAGAAGCAAAAAGCCCTTGAGCGCCATGGAAATGCCGCTTCTGAGGAGACTGTCAACATTT
CCCAACAG

ORF - retro_pvam_572 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 58.47 %
Parental protein coverage: 69.7 %
Number of stop codons detected: 1
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMPPKFDPNEVKVVYLRCTGGEVGATSALAPKIG-PLGLSPKKVGDDIAKATGDWKGLRITV-KLTIQNRQ
MPPKF.P.E.....LRC..GE.GATSA.APK...PLG.SP.KVGDDIAKATGD....RIT...LT..NRQ
RetrocopyMPPKFGPKEIGAL*LRCARGEIGATSAPAPKVS<PLGPSPEKVGDDIAKATGD----RITA<ELTTRNRQ
ParentalAQIEVVPSASAL-IIKALKEPPRDRKKQKNIKHSGNITFDEIVNIARQ
AQ...VP.ASAL.II.A...PP..R.KQK.....GN....E.VNI..Q
RetrocopyAQ--TVPGASALIIIRAREAPPGAREKQKALERHGNAASEETVNISQQ

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_572 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 13 parental genes, and 143 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000069633 retrocopies
Callithrix jacchus ENSCJAG000000180821 retrocopy
Gorilla gorilla ENSGGOG0000000064834 retrocopies
Latimeria chalumnae ENSLACG000000153733 retrocopies
Macropus eugenii ENSMEUG0000000738012 retrocopies
Macaca mulatta ENSMMUG000000004222 retrocopies
Monodelphis domestica ENSMODG000000045719 retrocopies
Mus musculus ENSMUSG000000389001 retrocopy
Pongo abelii ENSPPYG0000001962244 retrocopies
Pan troglodytes ENSPTRG000000228081 retrocopy
Pteropus vampyrus ENSPVAG00000000925 15 retrocopies
Rattus norvegicus ENSRNOG000000162204 retrocopies
Sus scrofa ENSSSCG0000000561214 retrocopies



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