RetrogeneDB ID:

retro_pvam_1421

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_82501:417..703(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL9
Ensembl ID:ENSPVAG00000000919
Aliases:None
Description:ribosomal protein L9 [Source:HGNC Symbol;Acc:10369]


Retrocopy-Parental alignment summary:






>retro_pvam_1421
GTGTGTGCTCATTTCCCCATCAGCGCTGTTACTTGGGAAAACAGGTCTCATTCAAATCTAAAATTTCTTGGATGAAAAAT
ACATCCACAGGATATGAATGAGACCAGACATTGCTTGTTCAGTATCTCAGGTCCAAAAAGATAAGTTAATTCTTGAAAGA
AATGACATTGAACTTGTATCAAATTCCAATGCTTTAATTCATTAAGCCATAATGGTTAAAAACAAGGCTATCAGATAATA
TTTGGATATCTATGTTTTTCAAAGAAAAACAGTTCAGCAGGCTGAT

ORF - retro_pvam_1421 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.27 %
Parental protein coverage: 50.52 %
Number of stop codons detected: 4
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVYAHFPIN-VVIQENGSLVEIRNFLGEKYIRRVRMRSGVACSVSQAQKDELILEGNDIELVSNSAALIQQ
V.AHFPI........G.L..I.NFL.EKYI.R..MR...ACSVSQ.QKD.LILE.NDIELVSNS.ALI..
RetrocopyVCAHFPIS>LLLGKTG-LIQI*NFLDEKYIHRI*MRPDIACSVSQVQKDKLILERNDIELVSNSNALIH*
ParentalATTVKNKDIRKFLDGIYVSEKGTVQQAD
A..VKNK.IR..LD.IYV....TVQQAD
RetrocopyAIMVKNKAIR*YLD-IYVFQRKTVQQAD

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_1421 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 24 parental genes, and 407 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000073171 retrocopy
Ailuropoda melanoleuca ENSAMEG0000000318731 retrocopies
Bos taurus ENSBTAG000000145183 retrocopies
Canis familiaris ENSCAFG0000001600828 retrocopies
Callithrix jacchus ENSCJAG0000000072329 retrocopies
Cavia porcellus ENSCPOG0000000454315 retrocopies
Danio rerio ENSDARG000000373501 retrocopy
Felis catus ENSFCAG0000001228434 retrocopies
Gorilla gorilla ENSGGOG0000002279926 retrocopies
Gadus morhua ENSGMOG000000010021 retrocopy
Loxodonta africana ENSLAFG0000001202138 retrocopies
Macropus eugenii ENSMEUG000000167228 retrocopies
Microcebus murinus ENSMICG0000001677818 retrocopies
Myotis lucifugus ENSMLUG0000000459734 retrocopies
Macaca mulatta ENSMMUG0000000855322 retrocopies
Monodelphis domestica ENSMODG000000205537 retrocopies
Mus musculus ENSMUSG000000472152 retrocopies
Otolemur garnettii ENSOGAG0000000493520 retrocopies
Pongo abelii ENSPPYG0000001467510 retrocopies
Pteropus vampyrus ENSPVAG00000000919 49 retrocopies
Rattus norvegicus ENSRNOG000000267163 retrocopies
Sarcophilus harrisii ENSSHAG000000049188 retrocopies
Tupaia belangeri ENSTBEG0000000604218 retrocopies
Vicugna pacos ENSVPAG000000020231 retrocopy



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