RetrogeneDB ID:

retro_pvam_1130

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_3151:161662..162087(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPL27A
Ensembl ID:ENSPVAG00000002887
Aliases:None
Description:ribosomal protein L27a [Source:HGNC Symbol;Acc:10329]


Retrocopy-Parental alignment summary:






>retro_pvam_1130
ATGCCGTCCAGACTGAAGAAGAACCGGAAACTTCGGGGCCACATGAGCCATGGCCACAGTCATATCAGCAAGCACCAGAA
GCACCCGGGAGGCTGAGGTAATGCTGGTGGCATGCATCACCACAGGGTCAACTTTGACAAATATCGCCCAGGTTACTTTG
GGAAAGTTGATATGACACATTACCACTTAAAGAGGAACTAGAGCTTCTGGCCAGCCATCAACCTTGATAAACTGTGGACC
TTGGTCAGTGAGCAGACATGGGTAAATGCTGCCAAAAACAAGACAGGAGCTGCTTCTATCACTGGTGTGGTGTGGTCAGG
CTATACTACAAAGTTCTGGGGAAGGGAAAGCTCCCAAAGCAGCCTGTAATCGTGAAGGCCAAATTCTTCAGAAGAGCTGA
GGAGAAGATTAAGAATGTTGTTGGG

ORF - retro_pvam_1130 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.17 %
Parental protein coverage: 95.95 %
Number of stop codons detected: 2
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalMPSRLRKTRKLRGHVSHGHGRIGKHRKHPGGRGNAGGMHHHRINFDKYHPGYFGKVGMRHYHLKRNQSFC
MPSRL.K.RKLRGH.SHGH..I.KH.KHPGG.GNAGGMHHHR.NFDKY.PGYFGKV.M.HYHLKRN.SF.
RetrocopyMPSRLKKNRKLRGHMSHGHSHISKHQKHPGG*GNAGGMHHHRVNFDKYRPGYFGKVDMTHYHLKRN*SFW
ParentalPTVNLDKLWTLVSEQTRVNAAKNKTGAAPIIDVVRSGY-YKVLGK-GKLPKQPVIVKAKFFSRRAEEKIK
P..NLDKLWTLVSEQT.VNAAKNKTGAA.I..VV.SGY..K..G..GKLPKQPVIVKAKFF.RRAEEKIK
RetrocopyPAINLDKLWTLVSEQTWVNAAKNKTGAASITGVVWSGYTTKFWGR<GKLPKQPVIVKAKFF-RRAEEKIK
ParentalGVGG
.V.G
RetrocopyNVVG

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_1130 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 10 parental genes, and 57 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG0000000420515 retrocopies
Bos taurus ENSBTAG000000053492 retrocopies
Canis familiaris ENSCAFG000000069362 retrocopies
Callithrix jacchus ENSCJAG000000117751 retrocopy
Microcebus murinus ENSMICG000000022964 retrocopies
Myotis lucifugus ENSMLUG000000166167 retrocopies
Mus musculus ENSMUSG000000463641 retrocopy
Oryctolagus cuniculus ENSOCUG000000054421 retrocopy
Pteropus vampyrus ENSPVAG00000002887 14 retrocopies
Rattus norvegicus ENSRNOG0000001421410 retrocopies



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