RetrogeneDB ID:

retro_pvam_438

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_3134:1978..2382(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:COX5A
Ensembl ID:ENSPVAG00000012957
Aliases:None
Description:cytochrome c oxidase subunit Va [Source:HGNC Symbol;Acc:2267]


Retrocopy-Parental alignment summary:






>retro_pvam_438
CTGAGTAGCAGCAGCCCTGGCCAGCCCTCAAAGCCTCCTGCACTCCACCCCGCCCCAGCCTGGGTTCCGCCTGCTGCTAT
CCATTAAGTTTGCTGCTACTCCCATGGCTCACATGAGACAGATGAGGAGTTTGATGCTCTCTGAGTGACATACTTCAACA
GGCCACATATTGATACCTGGCATAAAGGGGTAAACACACTTGTTGGCTATGATCTGGTTCCAGAACCTAAAATCATTGAT
GCTGCTTTGTGGGCATGTAGATGGTTAAATGATTTTGCTAGTGCTGTTCACATCTTAGAGGTTGCTAAAGACAAACAGGA
CCTCATAAAGAAACTTAACCTTCTGTCATCCAGGAACGAAGACCAACTTTAAATGGACTGAGAATCTCCACTCCAGACAA
AGTG

ORF - retro_pvam_438 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 63.77 %
Parental protein coverage: 90.13 %
Number of stop codons detected: 3
Number of frameshifts detected 1


Retrocopy - Parental Gene Alignment:

ParentalVAAAAAARASPRGLLHXXXXXXXXXXIQSVRCYSHGSHETDEEFDARWVTYFNKPDIDAWELRKGMNTLV
.........S....LH..........I..V.CYSHGSHETDEEFDA..VTYFN.P.ID.W...KG.NTLV
RetrocopyLSSSSPGQPSKPPALHPAPAWVPPAAIH*VCCYSHGSHETDEEFDAL*VTYFNRPHIDTWH--KGVNTLV
ParentalGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQELRPTLNELGISTPEEL
GYDLVPEPKIIDAAL.ACR.LNDFASAV.ILEV.KDK..GPHKE..P.VIQE.RPTLN.L.ISTP...
RetrocopyGYDLVPEPKIIDAALWACRWLNDFASAVHILEVAKDK<TGPHKET*PSVIQERRPTLNGLRISTPDKV

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






RNA-Seq - click to see more details

Pteropus vampyrus was not studied using RNA-Seq expression data.