RetrogeneDB ID:

retro_pvam_51

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_115:30957..31608(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ATP5C1
Ensembl ID:ENSPVAG00000006512
Aliases:None
Description:ATP synthase, H+ transporting, mitochondrial F1 complex, gamma polypeptide 1 [Source:HGNC Symbol;Acc:833]


Retrocopy-Parental alignment summary:






>retro_pvam_51
ATATTTTCTTGGGTGGGCATCGTGAGGTCTCAGCCTGGTCTGTGCAGCCACGATGGATCCAAGTTCGAAATATGACAACT
TTGAAAGATATTACCAGGCAACTAAAGTCAATCAAAAACATCCAGAAAATTACCAAAGTCTATGAAAATAGTAGCAGCAG
CAAAATATTCCTGAGCTGAGAGGGAGCTGAAACCAGCTTACGTGTATGGAACAGGATCTTTGGCTCCGTATGAAAAAGCT
GATATTAAGGTGCCTGAAGACAAGAAGAAACACTTTCTTATCAGTGTGTCCTCAGATAGAGGGCTTTGTGGTGCAATTCA
TTCCTCAGTTGCTAAACAGGTGAAAAGTGAGGTGGCTACACTCCCAGCAGCTGGGAAAGAAGTTAAGATTGTTGGAGTTG
ATGATAAAATTAGGGATATACTTCATAGGACTCATTCTGTCTGATCAGTTTCTGGTGACAAAGAAGTAGGAAGAAAACCC
CCTAATTTTGGAGTTGCATTAGTCTTTGCCCTGGAATTATTAAATTCTGGATATGAACTTGATGAAGCATCTATCGTCTT
TAATTGATTCAGGTCTGTCATTTCCTACAAGACAGAAGAAAAGCTCATCTATTTCCTTAATATCATTGCGAATGCTGAGA
GCATAATGATA

ORF - retro_pvam_51 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 77.63 %
Parental protein coverage: 72.82 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMFSRAGVVG-VSAWAVQPQWIQVRNMATLKDITRRLKSIKNIQKITK-SMKMVAAAKYARAERELKPARV
.FS..G.V..VSAW.VQP.WIQVRNM.TLKDITR.LKSIKNIQKITK.SMK.VAAAKY..AERELKPA.V
RetrocopyIFSWVGIVR<VSAWSVQPRWIQVRNMTTLKDITRQLKSIKNIQKITK>SMKIVAAAKYS*AERELKPAYV
ParentalYGIGSLALYEKADIKGPEDKKKHLLIGVSSDRGLCGAIHSSVAKQMKNEVATLTAAGEEVKIVGVGDKIR
YG.GSLA.YEKADIK.PEDKKKH.LI.VSSDRGLCGAIHSSVAKQ.K.EVATL.AAG.EVKIVGV.DKIR
RetrocopyYGTGSLAPYEKADIKVPEDKKKHFLISVSSDRGLCGAIHSSVAKQVKSEVATLPAAGKEVKIVGVDDKIR
ParentalGILHRTHSDQFLVTFKEVGRKPPTFGDASVIALELLNSGYEFDEGSIIFNQFRSVISYKTEEKPIFSLNT
.ILHRTHS.......KEVGRKPP.FG.A.V.ALELLNSGYE.DE.SI.FN.FRSVISYKTEEK.I..LN.
RetrocopyDILHRTHSV*SVSGDKEVGRKPPNFGVALVFALELLNSGYELDEASIVFN*FRSVISYKTEEKLIYFLNI
ParentalIASSESMSI
IA..ES..I
RetrocopyIANAESIMI

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_51 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 21 parental genes, and 43 retrocopies.

Species Parental gene accession Retrocopies number
Canis familiaris ENSCAFG000000050241 retrocopy
Choloepus hoffmanni ENSCHOG000000112293 retrocopies
Callithrix jacchus ENSCJAG000000206357 retrocopies
Cavia porcellus ENSCPOG000000105232 retrocopies
Echinops telfairi ENSETEG000000105491 retrocopy
Felis catus ENSFCAG000000001961 retrocopy
Homo sapiens ENSG000001656291 retrocopy
Gorilla gorilla ENSGGOG000000097191 retrocopy
Macaca mulatta ENSMMUG000000092071 retrocopy
Monodelphis domestica ENSMODG000000167201 retrocopy
Mus musculus ENSMUSG000000257814 retrocopies
Nomascus leucogenys ENSNLEG000000119171 retrocopy
Oryctolagus cuniculus ENSOCUG000000046422 retrocopies
Otolemur garnettii ENSOGAG000000152422 retrocopies
Procavia capensis ENSPCAG000000049711 retrocopy
Pongo abelii ENSPPYG000000020761 retrocopy
Pan troglodytes ENSPTRG000000022771 retrocopy
Pteropus vampyrus ENSPVAG00000006512 3 retrocopies
retro_pvam_1466, retro_pvam_51 , retro_pvam_530,
Ictidomys tridecemlineatus ENSSTOG000000261331 retrocopy
Tupaia belangeri ENSTBEG000000115304 retrocopies
Tarsius syrichta ENSTSYG000000030354 retrocopies



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