RetrogeneDB ID:

retro_pvam_1435

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:scaffold_85601:197..540(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPS26
Ensembl ID:ENSPVAG00000007559
Aliases:None
Description:ribosomal protein S26 [Source:HGNC Symbol;Acc:10414]


Retrocopy-Parental alignment summary:






>retro_pvam_1435
ATGACCAAGAAAAGAAGGAACAATGGTCGTGCCAAAAAGGGCTTCGGCCACTTGCAGCCTATTTGTTGCACCAACGGTGC
CCAATGTATGCCCAAGGACAAGGCCATTAAGAATTTTATCATTTGAAACATAGTAGAGGCTGCAGCCATTAGGGACATTT
CCAAAGCAAATGTCTTTGACACCTATGTGCTTCCCAAGCTGTATGTGAAACCACGTTTCTGTGTGAGTTGTGCCATTCAT
GGCAAAGTAGTCAGGAATTGCTCTCATGAAGCCCAGAAGACTGAACTCCCCACCCCAATTTAGACCCGTGGATGTTGCCC
CACAACCTCCACCAAAGCCCGTG

ORF - retro_pvam_1435 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.21 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMTKKRRNNGRAKKGRGHVQPIRCTNCARCVPKDKAIKKFVIRNIVEAAAVRDISEASVFDAYVLPKLYVK
MTKKRRNNGRAKKG.GH.QPI.CTN.A.C.PKDKAIK.F.I.NIVEAAA.RDIS.A.VFD.YVLPKLYVK
RetrocopyMTKKRRNNGRAKKGFGHLQPICCTNGAQCMPKDKAIKNFII*NIVEAAAIRDISKANVFDTYVLPKLYVK
ParentalLHYCVSCAIHSKVVRNRSREARK-DRTP-PPRFRPAGAAPRPPPKPM
...CVSCAIH.KVVRN.S.EA.K.D.TP.PP.FRP...AP.PPPKP.
RetrocopyPRFCVSCAIHGKVVRNCSHEAQK<D*TP<PPQFRPVDVAPQPPPKPV

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_1435 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 11 parental genes, and 102 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000388963 retrocopies
Cavia porcellus ENSCPOG000000236306 retrocopies
Echinops telfairi ENSETEG0000000451035 retrocopies
Homo sapiens ENSG0000019772813 retrocopies
Gorilla gorilla ENSGGOG000000115666 retrocopies
Loxodonta africana ENSLAFG000000133298 retrocopies
Myotis lucifugus ENSMLUG0000002996810 retrocopies
Ochotona princeps ENSOPRG000000057213 retrocopies
Pan troglodytes ENSPTRG000000050751 retrocopy
Pteropus vampyrus ENSPVAG00000007559 15 retrocopies
Sus scrofa ENSSSCG000000003742 retrocopies



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