RetrogeneDB ID:

retro_pvam_131

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_1551:8068..8527(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:OTUB1
Ensembl ID:ENSPVAG00000017099
Aliases:None
Description:OTU domain, ubiquitin aldehyde binding 1 [Source:HGNC Symbol;Acc:23077]


Retrocopy-Parental alignment summary:






>retro_pvam_131
CTGTCTGCCAAGATTAAAGAGGACCTGGTGTTCCAGCGCTTCACCAAGTTCACAATTAAAGATTTCCACAACATATTCAC
AGACCTGATTGAGCAGGTAAAGAAGCAGACCTCAGTAGCCTATCTGCTGGCCTCCTTCAATGACCAGAGCACCTGCAACT
ACCTGGTAGTTTACCAGCAGCTGCTCACTTCAGGCCACCTGCAGCATAACAGCAAGTTTTCTGAGTACTACATCAAGGGT
GTGTGAACTGTCAAGGAGTTCTGCCATCAGGAGGTGGAGCCCATGTGCAAGGAGACTGATCACATCTACGTTATCACGCT
GGCCCAGGCCTTCAGTGTCTCCATCCAGATGGAGGACATAGACCATGGTGAAGACAACACCACCAGTCGGCACATTTCCT
CTGAGGGCTCTGAGCCAAAGGTCTACCTTCTCAGCTGGCCTGGACACTACAGTATCCTA

ORF - retro_pvam_131 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 72.55 %
Parental protein coverage: 60.96 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVSAKSKEDLVSQGFTEFTIEDFHNTFMDLIEQVEKQTSVADLLASFNDQSTSDYLVVYLRLLTSGYLQRE
.SAK.KEDLV.Q.FT.FTI.DFHN.F.DLIEQV.KQTSVA.LLASFNDQST..YLVVY..LLTSG.LQ..
RetrocopyLSAKIKEDLVFQRFTKFTIKDFHNIFTDLIEQVKKQTSVAYLLASFNDQSTCNYLVVYQQLLTSGHLQHN
ParentalSKFFEHFIEGGRTVKEFCQQEVEPMCKESDHIHIIALAQALSVSIQVEYMDRGEGGTTNPHIFPEGSEPK
SKF.E..I.G..TVKEFC.QEVEPMCKE.DHI..I.LAQA.SVSIQ.E..D.GE..TT..HI..EGSEPK
RetrocopySKFSEYYIKGV*TVKEFCHQEVEPMCKETDHIYVITLAQAFSVSIQMEDIDHGEDNTTSRHISSEGSEPK
ParentalVYLLYRPGHYDIL
VYLL..PGHY.IL
RetrocopyVYLLSWPGHYSIL

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_131 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 9 parental genes, and 12 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000180841 retrocopy
Bos taurus ENSBTAG000000039671 retrocopy
Canis familiaris ENSCAFG000000147292 retrocopies
Equus caballus ENSECAG000000026211 retrocopy
Myotis lucifugus ENSMLUG000000122352 retrocopies
Mustela putorius furoENSMPUG000000133141 retrocopy
Pteropus vampyrus ENSPVAG00000017099 2 retrocopies
retro_pvam_131 , retro_pvam_274,
Rattus norvegicus ENSRNOG000000211751 retrocopy
Sarcophilus harrisii ENSSHAG000000041561 retrocopy



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