RetrogeneDB ID:

retro_ogar_713

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873526.1:24496896..24497843(+)
Located in intron of:ENSOGAG00000008469
Retrocopy
information
Ensembl ID:ENSOGAG00000027855
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:RPLP0
Ensembl ID:ENSOGAG00000003843
Aliases:None
Description:ribosomal protein, large, P0 [Source:HGNC Symbol;Acc:10371]


Retrocopy-Parental alignment summary:






>retro_ogar_713
CCCAGGGAAGGCAGGGTGACATGGAAGTCCAACTACTTCCTTAAGATCATCCAACTTTTAGATGATTATCCAAAGTACTT
CATTGTGGGAGCAGACATCATGCGTTCCAAGCAGATGAAGCTGACCTGCATGTCCCTTCGAGAAAAGACTGTGGTACTGA
TAGGGAAGAACACCAGGATGCACAAGGCTATCCAAGAGCATCTGGAAAACAACTCAGCTCTGGAGAAACTACTGCCTCAT
ATCCTGGGTAATGTGGGCTTTGTGCTCAGCAAGGAGGACCTCACTGAGATCAGGGACATGCTGCTGGCCAATATGGTGCC
AGCTGCCACTCTTGCTGGTGCCACTGCTTCACGTGAAGTCCCTGTGCCAGCCCAGAACACTGATCTGGAGCCAGAGAAGA
TCTTCCTCCAGGCTTTAGGTATCACCACTAAAATCTCCAGGGGAAACCACTGAAATCCTGAGTGATAGGCAGCTGATAAA
GCCTGGAGACAAAGTAGAAGCCAGCAAAGCCATACTGCTAAACAAGCTGAACATCTCCCCCTTCTCCTTAGGGCGGATAA
TCCAACAGTGTTTTGACAAGGGCAGCATCTACAACCCTGAAGTGTTTGACATTACAGAGGAAACGCTCTGCATTCTCACT
TCCTGGAGGGTGTCCGCAATGTTGCCAATGTTTGTATGCAGATTGGTTACCCAACTGTTTCATCAGTACCCCATTCTATC
CTCAAGGGGTACAAGAGAGTCCTGGCTTTGTCTATGGAGACTGATCACACCTTCCCACTAGTTGAAAAGGTCAAGGCCTT
CTTGGCTGATACATGTGCCTTTGTAGTTGCTGCCCCTATGGCTGCCACCACCATTGCTACTCCTGCTACTGCTGCAGCCC
CAGCCAAGGTTGAAGCCAAGAAGAGTTAGAGGAGTCTGACAAGGATATGGGATTTGGTCTCTTTGAC

ORF - retro_ogar_713 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.38 %
Parental protein coverage: 99.68 %
Number of stop codons detected: 3
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalPREDRATWKSNYFLKIIQLLDDYPKCFIVGADNVGSKQMQQIRMSLRGKAVVLMGKNTMMRKAIRGHLEN
PRE.R.TWKSNYFLKIIQLLDDYPK.FIVGAD...SKQM....MSLR.K.VVL.GKNT.M.KAI..HLEN
RetrocopyPREGRVTWKSNYFLKIIQLLDDYPKYFIVGADIMRSKQMKLTCMSLREKTVVLIGKNTRMHKAIQEHLEN
ParentalNPALEKLLPHIRGNVGFVFTKEDLTEIRDMLLANKVPAAARAGAIAPCEVTVPAQNTGLGPEKTSFFQAL
N.ALEKLLPHI.GNVGFV..KEDLTEIRDMLLAN.VPAA..AGA.A..EV.VPAQNT.L.PEK..F.QAL
RetrocopyNSALEKLLPHILGNVGFVLSKEDLTEIRDMLLANMVPAATLAGATASREVPVPAQNTDLEPEKI-FLQAL
ParentalGITTKISRG-TIEILSDVQLIKTGDKVGASEATLLNMLNISPFSFGLVIQQ-VFDNGSIYNP-EVLDITE
GITTKISRG.T.EILSD.QLIK.GDKV.AS.A.LLN.LNISPFS.G..IQQ.VF..G....P..V.....
RetrocopyGITTKISRG>TTEILSDRQLIKPGDKVEASKAILLNKLNISPFSLGRIIQQ<VF*QGQHLQP*SV*HYRG
ParentalETLHTRFLEGVRNVASVCLQIGYPTVASVPHSIINGYKRVLALSVETDYTFPLAEKVKAFLADPSAFVAA
..LH..FLEGVRNVA.VC.QIGYPTV.SVPHSI..GYKRVLALS.ETD.TFPL.EKVKAFLAD..AFV.A
RetrocopyNALHSHFLEGVRNVANVCMQIGYPTVSSVPHSILKGYKRVLALSMETDHTFPLVEKVKAFLADTCAFVVA
ParentalAPVAATTTAAPAATAAPAKVETK-EESEESDEDMGFGLFD
AP.AATT.A.PA..AAPAKVE.K.EE.EESD.DMGFGLFD
RetrocopyAPMAATTIATPATAAAPAKVEAK<EELEESDKDMGFGLFD

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






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_713 was not experimentally validated.

Retrocopy orthology:
Otolemur garnettii 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 30 parental genes, and 120 retrocopies.

Species Parental gene accession Retrocopies number
Anolis carolinensis ENSACAG000000037562 retrocopies
Ailuropoda melanoleuca ENSAMEG000000051444 retrocopies
Canis familiaris ENSCAFG000000102275 retrocopies
Choloepus hoffmanni ENSCHOG000000027452 retrocopies
Callithrix jacchus ENSCJAG000000086773 retrocopies
Cavia porcellus ENSCPOG000000218125 retrocopies
Equus caballus ENSECAG000000158162 retrocopies
Erinaceus europaeus ENSEEUG000000075531 retrocopy
Felis catus ENSFCAG000000133541 retrocopy
Homo sapiens ENSG000000891577 retrocopies
Gorilla gorilla ENSGGOG000000265825 retrocopies
Macropus eugenii ENSMEUG0000001640912 retrocopies
Myotis lucifugus ENSMLUG0000000197011 retrocopies
Macaca mulatta ENSMMUG000000091572 retrocopies
Mustela putorius furoENSMPUG000000030554 retrocopies
Mus musculus ENSMUSG000000672742 retrocopies
Nomascus leucogenys ENSNLEG0000000029211 retrocopies
Oryctolagus cuniculus ENSOCUG000000057492 retrocopies
Otolemur garnettii ENSOGAG00000003843 4 retrocopies
Procavia capensis ENSPCAG000000164296 retrocopies
Petromyzon marinus ENSPMAG000000013391 retrocopy
Pongo abelii ENSPPYG000000050225 retrocopies
Pteropus vampyrus ENSPVAG000000031103 retrocopies
Rattus norvegicus ENSRNOG000000011483 retrocopies
Sarcophilus harrisii ENSSHAG000000016232 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000113274 retrocopies
Tupaia belangeri ENSTBEG000000054981 retrocopy
Tarsius syrichta ENSTSYG000000097327 retrocopies
Tursiops truncatus ENSTTRG000000056581 retrocopy
Vicugna pacos ENSVPAG000000121562 retrocopies



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