RetrogeneDB ID:

retro_pvam_1113

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_29843:1318..1652(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL23A
Ensembl ID:ENSPVAG00000002922
Aliases:None
Description:ribosomal protein L23a [Source:HGNC Symbol;Acc:10317]


Retrocopy-Parental alignment summary:






>retro_pvam_1113
CCCACCTCCCAACAGCCCAAGACAATGTGGCTTCGAAGGCAGCCCAGATATCTTCGGAAGAGCGCCCCCCGGAGAAATAA
GCTTAACCGTTATGCCACCAATGAGTCCCCCTGGCCGCCGAGTAAGCCATGAAGACAGAAGGCAACAGTGCACTTGTGTT
CACTGTGGGTGTCAAGGCCAACAAGCACCAGATCAAATAGGCCGAGAAGAAGAGCTATGACGTTGACGTGGCCAAGGTCA
ACGCCCTGATCAGGCCGGATGAGGAGAAGAAGGCATATGTTGAATGGCTCCCGAAAACGATGCTTTGGATGTTGCCAATA
AAATTGGGGTCATC

ORF - retro_pvam_1113 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.7 %
Parental protein coverage: 61.08 %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalPTFRRPKTLRLRRQPKYPRKSAPRRNKLDHYAIIK-FPLTTESAMKKIEDNNTLVFIVDVKANKHQIKQA
PT...PKT..LRRQP.Y.RKSAPRRNKL..YA.....PL..E.AMK..E.N..LVF.V.VKANKHQIK.A
RetrocopyPTSQQPKTMWLRRQPRYLRKSAPRRNKLNRYATNE<VPLAAE*AMKT-EGNSALVFTVGVKANKHQIK*A
ParentalVKKLYDIDVAKVNTLIRPDGEKKAYVR-LAPDYDALDVANKIGII
.KK.YD.DVAKVN.LIRPD.EKKAYV...AP..DALDVANKIG.I
RetrocopyEKKSYDVDVAKVNALIRPDEEKKAYVE<MAPENDALDVANKIGVI

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_1113 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 22 parental genes, and 446 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000468431 retrocopies
Bos taurus ENSBTAG000000463946 retrocopies
Callithrix jacchus ENSCJAG000000131267 retrocopies
Cavia porcellus ENSCPOG000000014526 retrocopies
Dasypus novemcinctus ENSDNOG0000001948765 retrocopies
Equus caballus ENSECAG000000089281 retrocopy
Felis catus ENSFCAG0000000402135 retrocopies
Gorilla gorilla ENSGGOG0000001673626 retrocopies
Loxodonta africana ENSLAFG0000001338716 retrocopies
Myotis lucifugus ENSMLUG000000124484 retrocopies
Monodelphis domestica ENSMODG000000192973 retrocopies
Mustela putorius furoENSMPUG0000001417912 retrocopies
Mus musculus ENSMUSG000000585468 retrocopies
Nomascus leucogenys ENSNLEG0000000287260 retrocopies
Procavia capensis ENSPCAG0000001700230 retrocopies
Pongo abelii ENSPPYG0000000810849 retrocopies
Pteropus vampyrus ENSPVAG00000002922 32 retrocopies
Rattus norvegicus ENSRNOG000000233446 retrocopies
Sarcophilus harrisii ENSSHAG0000001454913 retrocopies
Sus scrofa ENSSSCG000000177689 retrocopies
Sus scrofa ENSSSCG000000298024 retrocopies
Ictidomys tridecemlineatus ENSSTOG0000001132823 retrocopies



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