RetrogeneDB ID:

retro_pvam_144

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_1609:261681..262524(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSPVAG00000002070
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_pvam_144
GTGACCAGGCTTCTGGGCACGGTGCAGAGAGTTGCTTTGGCAGCTGCGCACTGCCGTTGCGGCCGCGGGGCCTGTTCTAT
GCTGTGAGGAGTGGCCGCGAGGCCCGGGTCTTCCTGACCTGGAATTAGCGTAGAGCACAGGTGGACCGATTTCCTGCTGC
CAGATTTAAGAAGTTAGCCACAGAAGAGGAAGCCTGGGCCTTTGTCAGAAACTTTGGGAGCCCTGATGGTTCAGAAGGGC
AGAAAGATAAACAGGTATAAGAATCACAAGTGAAAGTCAACAAGCAACTCTGTGAGCCCCTGGCTGAAGGAAATGAGAAC
TCAGAGCCATGTGCAAAGCATGTAAAATGGAACACTGAGGCAACACCTTTGGTTGGCAAGAACACGGCCTCTTATATGAG
AGACTACGCCGTTGTCTACACTGGTGACTGCTGCTCCAGTAACACACAGAGGAAGGCACAAGCAGGAATCGGTGTTTACT
GGGGGCCTGGCCACCCTTTAAACATAGGCATTAGACTTCCTGGGCAACAAACGAACCAAAGAGCAGAAATTCATGTGGCC
TGCAAAGCCATCCCACAAGCAAGGGCGCAAAACATCAGTAAGTTGGCTCTATATACGGACAGTATGTTTTACGATCAATG
GTATTGCTGACTGAGTTCGAGGTTGGAAGTAAAACAGATGGAGAATAAGCAGTGGGAAAAAGGTGATCAACAAATAGAAC
TTCTTAGAGCTACAGAAACTTGCTCAGGGCATGGACATTCAGAGGATGTGTGTTCCTGATCATTTGGGATTTGTAGGCAA
TGAAACAGCTGACAGATTAGCAAAAGGAGCAAAGCAATCCCAA

ORF - retro_pvam_144 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 68.18 %
Parental protein coverage: 99.65 %
Number of stop codons detected: 5
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalMTRLLGVARRVALAAVRRGCGCGA-LGMFYAVRRGRRAGVFLTWSECRAQVDRFPAARFKKFATEEEAWA
.TRLLG...RVALAA....C.CG...G.FYAVR.GR.A.VFLTW...RAQVDRFPAARFKK.ATEEEAWA
RetrocopyVTRLLGTVQRVALAAAH--CRCGR<RGLFYAVRSGREARVFLTWN*RRAQVDRFPAARFKKLATEEEAWA
ParentalFVRNSGSPGGAEGQKDEPVQESEAKGSKRLREPPADGDEDSEPCAKLAKPRAGPAPPVGKDTFSYMGEHA
FVRN.GSP.G.EGQKD..V.ES..K..K.L.EP.A.G.E.SEPCAK..K......P.VGK.T.SYM...A
RetrocopyFVRNFGSPDGSEGQKDKQV*ESQVKVNKQLCEPLAEGNENSEPCAKHVKWNTEATPLVGKNTASYMRDYA
ParentalIVYTDGCCSRNGRHRARAGIGVYWGPGHPLNISVRLPGRQTNQRAEIHAACKAIEQARAQRISKLALYTD
.VYT..CCS.N....A.AGIGVYWGPGHPLNI..RLPG.QTNQRAEIH.ACKAI.QARAQ.ISKLALYTD
RetrocopyVVYTGDCCSSNTQRKAQAGIGVYWGPGHPLNIGIRLPGQQTNQRAEIHVACKAIPQARAQNISKLALYTD
ParentalSM-FTINGITNWVEGWKKNGWRTSTGKEVINKEDFAELERLAQGMDIQWMHIPGHSGFVGNEEADRLARL
SM.FTINGI...V.GWK.N.WR.S.GK.VINK..F.EL..LAQGMDIQ.M..P.H.GFVGNE.ADRLA..
RetrocopySM>FTINGIAD*VRGWK*NRWRISSGKKVINK*NFLELQKLAQGMDIQRMCVPDHLGFVGNETADRLAK-
ParentalGARQPE
GA.Q..
RetrocopyGAKQSQ

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_144 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 13 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Choloepus hoffmanni ENSCHOG000000085476 retrocopies
Callithrix jacchus ENSCJAG000000354501 retrocopy
Echinops telfairi ENSETEG000000126741 retrocopy
Homo sapiens ENSG000001718652 retrocopies
Gorilla gorilla ENSGGOG000000348222 retrocopies
Macropus eugenii ENSMEUG000000036101 retrocopy
Macaca mulatta ENSMMUG000000144752 retrocopies
Monodelphis domestica ENSMODG000000144911 retrocopy
Nomascus leucogenys ENSNLEG000000154002 retrocopies
Pongo abelii ENSPPYG000000258731 retrocopy
Pan troglodytes ENSPTRG000000116141 retrocopy
Pteropus vampyrus ENSPVAG00000002070 1 retrocopy
retro_pvam_144 ,
Sarcophilus harrisii ENSSHAG000000130511 retrocopy



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