RetrogeneDB ID:

retro_pvam_354

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_27:25926..26339(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS3A
Ensembl ID:ENSPVAG00000015406
Aliases:None
Description:ribosomal protein S3A [Source:HGNC Symbol;Acc:10421]


Retrocopy-Parental alignment summary:






>retro_pvam_354
GTCAAGACTACTGATGATTATTTGCTTAGTCTGTTCCATGTTGCTTGTACTAAAAAATTCAACAATCAGATTTGGAAGAC
CTCTTATACTCAGCATCAACAGGTCCGCCAAATCCAGAAGAATTTGATGAAATCATGACCCAAGAGGTGCAGACAAATGA
CTTGAAAGAAGTGGTCAATAAATTGATTCTGGATATCATTGGAAAAGACATAGAAAAGTCTTGCCAATCTATTTATCCTC
TCCATGATGTCTTTGTTAGAAAAGTCAAAAGGCTGAAGAAAACCAAGTTTGAATTGGGAAAACTCATAGAGCTTCATGGT
GAAAGTAGCAGTTCTGGAACAGCTACTTGGGATGGAACAGGTGCTTAAATTGAATGAGCTGGTGGATGTGAGCCCCCAGT
CCAATAATCTGTT

ORF - retro_pvam_354 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 79.14 %
Parental protein coverage: 52.27 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVKTTDGYLLRLFCVGFTKKRNNQIRKTSYAQHQQVRQIRKKMM-EIMTREVQTNDLKEVVNKLIPDSIGK
VKTTD.YLL.LF.V..TKK.NNQI.KTSY.QHQQVRQI.K..M.EIMT.EVQTNDLKEVVNKLI.D.IGK
RetrocopyVKTTDDYLLSLFHVACTKKFNNQIWKTSYTQHQQVRQIQKNLM<EIMTQEVQTNDLKEVVNKLILDIIGK
ParentalDIEKACQSIYPLHDVFVRKVKMLKKPKFELGKLMELHGEGSSSGKATGDETGAKVERADGYEPPVQESV
DIEK.CQSIYPLHDVFVRKVK.LKK.KFELGKL.ELHGE.SSSG.AT.D.TGA..E.A.G.EPPVQ.SV
RetrocopyDIEKSCQSIYPLHDVFVRKVKRLKKTKFELGKLIELHGESSSSGTATWDGTGA*IE*AGGCEPPVQ*SV

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_354 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 14 parental genes, and 101 retrocopies.

Species Parental gene accession Retrocopies number
Cavia porcellus ENSCPOG000000155699 retrocopies
Equus caballus ENSECAG000000095736 retrocopies
Felis catus ENSFCAG000000312885 retrocopies
Loxodonta africana ENSLAFG000000176603 retrocopies
Macaca mulatta ENSMMUG000000218211 retrocopy
Monodelphis domestica ENSMODG000000009696 retrocopies
Mustela putorius furoENSMPUG000000071398 retrocopies
Mus musculus ENSMUSG000000280812 retrocopies
Procavia capensis ENSPCAG000000150406 retrocopies
Pongo abelii ENSPPYG0000002586927 retrocopies
Pteropus vampyrus ENSPVAG00000015406 24 retrocopies
Rattus norvegicus ENSRNOG000000118931 retrocopy
Sarcophilus harrisii ENSSHAG000000150882 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000242031 retrocopy



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