RetrogeneDB ID:

retro_pvam_217

Retrocopy
location
Organism:Megabat (Pteropus vampyrus)
Coordinates:GeneScaffold_1975:203131..203603(-)
Located in intron of:ENSPVAG00000002629
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:RPE
Ensembl ID:ENSPVAG00000014452
Aliases:None
Description:ribulose-5-phosphate-3-epimerase [Source:HGNC Symbol;Acc:10293]


Retrocopy-Parental alignment summary:






>retro_pvam_217
GCATTCAGCTGTGAGATTGGTCCGTCCGTCCTCAGTAGCCACCTGGCCAATTTGGTGGACAAGTACCTCTGGATCGTGGT
CTCAGGAGCCAATGATCTAAACCTGGATATAATACATGAGCATTTTGTTCAAAACATCACCTTTAGGCACCCTGTGATAG
GAAGTCTCTAAAAGCATCTAAGCCAAGATCCTTTCCTGGACATGCACAGAATGGTGTTGAGGCTGGAACGGTGAGTAAAG
CCAATGGCTGCAGTAGGAGCCAATCAATATACTTTTCATCTAAAAGATACTGGGAACCCAGGGGCTTTGATTAAAGACAT
CTGAGAGAATGGAATAAAAGTTGGACTTGCCAACAAACTAGGAACTACAATTGAGTATTTGACACCATGGGCTAATCAAA
TAGACATGGCCTGATTATATCAGTGGAATCTAGGTGTGAAGGACAAAAATTAATGAAGATATGATGCCAAAG

ORF - retro_pvam_217 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 65.62 %
Parental protein coverage: 69.3 %
Number of stop codons detected: 3
Number of frameshifts detected 2


Retrocopy - Parental Gene Alignment:

ParentalASGCRIGPSILNSDLANLGAECLRMLDSGADYLHLDVMDGHFVPNITFGHPVVESLRKQLGQDPFFDMHM
A..C.IGPS.L.S.LANL....L....SGA..L.LD....HFV.NITF.HPV..SL.K.L.QDPF.DMH.
RetrocopyAFSCEIGPSVLSSHLANLVDKYLWIVVSGANDLNLDIIHEHFVQNITFRHPVIGSL*KHLSQDPFLDMHR
ParentalMVSRPEQWVKPMAVAGANQYTFHLEATENPGALIKDIRENGMKVGLAIKPGTTVEYLAPWANQIDMA-LV
MV.R.E..VKPMA..GANQYTFHL..T.NPGALIKDI.ENG.KVGLA.K.GTT.EYL.PWANQIDMA.L.
RetrocopyMVLRLER*VKPMAAVGANQYTFHLKDTGNPGALIKDI*ENGIKVGLANKLGTTIEYLTPWANQIDMA<LI
ParentalMTVEPGFGGQKFM-EDMMPK
..VE....GQK.M.EDMMPK
RetrocopyISVESRCEGQKLM<EDMMPK

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_217 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 24 parental genes, and 61 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000049653 retrocopies
Bos taurus ENSBTAG000000478062 retrocopies
Canis familiaris ENSCAFG000000138113 retrocopies
Choloepus hoffmanni ENSCHOG000000011105 retrocopies
Callithrix jacchus ENSCJAG000000108222 retrocopies
Dasypus novemcinctus ENSDNOG000000031931 retrocopy
Equus caballus ENSECAG000000000023 retrocopies
Homo sapiens ENSG000001977135 retrocopies
Latimeria chalumnae ENSLACG000000028001 retrocopy
Loxodonta africana ENSLAFG000000141272 retrocopies
Microcebus murinus ENSMICG000000099534 retrocopies
Macaca mulatta ENSMMUG000000105132 retrocopies
Monodelphis domestica ENSMODG000000158276 retrocopies
Mustela putorius furoENSMPUG000000079482 retrocopies
Nomascus leucogenys ENSNLEG000000071723 retrocopies
Oryctolagus cuniculus ENSOCUG000000169951 retrocopy
Otolemur garnettii ENSOGAG000000027781 retrocopy
Pongo abelii ENSPPYG000000131324 retrocopies
Pteropus vampyrus ENSPVAG00000014452 2 retrocopies
retro_pvam_217 , retro_pvam_636,
Sus scrofa ENSSSCG000000161521 retrocopy
Ictidomys tridecemlineatus ENSSTOG000000103221 retrocopy
Tarsius syrichta ENSTSYG000000033045 retrocopies
Tursiops truncatus ENSTTRG000000009081 retrocopy
Vicugna pacos ENSVPAG000000115851 retrocopy



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