RetrogeneDB ID:

retro_ogar_991

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873532.1:27852553..27853924(-)
Located in intron of:ENSOGAG00000015089
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF3D
Ensembl ID:ENSOGAG00000002978
Aliases:None
Description:eukaryotic translation initiation factor 3, subunit D [Source:HGNC Symbol;Acc:3278]


Retrocopy-Parental alignment summary:






>retro_ogar_991
ATGGCAAAAGTCATGACACTTGTGATCCAGGACAATCCCTCAGGCTGGGGTCCCTGTGCCGTTCCTGAGCAGTTTCGGGA
TATGCCCTACCAGCCATTCAGCAAAGGAGATCCGTTAGGAAAGTTGGAGACTGGACAGGAACCATATCCCAAGATAAAAG
GTACACAAATAAGTACTCCTCTCAATTTGGTGGTGGAAGTCAATATGCTTATTTCCATGAGGAGGATGAAACTAGCTTTC
AACTGGTGGATTCTGCACAAACACAGAAGACTGCCTACCAGCATAATCGGATGAGATTTGCACAGCGGACCCTTCACAGA
GACATAGATCAGCGGAACATGTTGCAGTTCAACTTGCAAGCCCTGCCTAAGAGCACTAAGCAGAAGAAGAGAGAACACAT
ATGACTACAGAAAAAATTCCAGAAGCAATTCAGGGTTAGGCAAAAATGGGATCAAAAATCACAGAAACCTCAAGACTCTT
CAGTTGAAGTTCATAGTGACTGGGAAGTGAAAGAAGAAATGGATTTTCCTCAGTTGATGAAGATGTGTTATCTGTAAGTG
TCAGAGTCACAGGACATCGAGTGTTGTGGAGCCCTAGAATACTACAATAAAGCTTTTGACCTCATCACCAGGAGGAGCTG
GAAGCCGCTGTGGAGCATCAAATGCATCTTCCACACTGGCACCACTACACATGACCCTGTCATCCGGAAGCTGGCAAAAA
CTCAAGGGAATGTGTTTGCCCCCAATGCCATCCTGGCCACTCTAATCAGCTGTACCCGCTCAGTGTACTCCTGGGATATT
GTCATCCAGAGAGTTGGGTCCAAGCTCTTATTTGATAAGAGGGCAACTCAGACTTTGACCTCCTTAATAGTGAGTGAGAC
AGCCAATGAGCCCCCTCAAGATGCAGGTAATTCCTTCAATTCACCCCACAATCTGGCCATGGAAGCAACCTACATTGACC
ACAGTTTCTCCCAGCAGTGCCTGAGAATGGGAAGAAAAGATACAATTTTCCCAGCCCAAACCCATTTGTGGAAGATGACA
TGGATAAGAATGAGATTGCATCTGTTGCATACCGGTATTGCGGGTGGAAGCTTGGGGATGATATTGACCTTATTGTTCGT
TGTAAGCATGATGGTGTCATGACTAGAGCCAATGGGGAGGTGTCCTTCATCAACATCAAGACACTTAATGAGTGAGATTC
CAGGCACTGAAACAGTGTTGACTGGCATCAGAAGCTGGACTCTCAGCGAGGAGCCATCATTGCCACTGAACTAAAGAACA
GCTATAAGCTGTCTAGATGACCTGCTGTGCTTTGCAGGCTGGATCTAAGTACCTCAAGCTCGGTTATGTGTCTCAATACC
ACGTGAAAGAC

ORF - retro_ogar_991 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 86.21 %
Parental protein coverage: 83.76 %
Number of stop codons detected: 4
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalMAKFMTPVIQDNPSGWGPCAVPEQFRDMPYQPFSKGDRLGK-VADWTGATYQDKRYTNKYSSQFGGGSQY
MAK.MT.VIQDNPSGWGPCAVPEQFRDMPYQPFSKGD.LGK.V.DWTG...QDKRYTNKYSSQFGGGSQY
RetrocopyMAKVMTLVIQDNPSGWGPCAVPEQFRDMPYQPFSKGDPLGK<VGDWTGTISQDKRYTNKYSSQFGGGSQY
ParentalAYFHEEDETSFQLVDTARTQKTAYQRNRMRFAQRTLRRDKDRRNMLQFNLQALPKSAKQKERERIRLQKK
AYFHEEDETSFQLVD.A.TQKTAYQ.NRMRFAQRTL.RD.D.RNMLQFNLQALPKS.KQK.RE.I.LQKK
RetrocopyAYFHEEDETSFQLVDSAQTQKTAYQHNRMRFAQRTLHRDIDQRNMLQFNLQALPKSTKQKKREHI*LQKK
ParentalFQKQFGVRQKWDQKSQKPRDSSVEVRSDWEVKEEMDFPQLMKMRYLEVSEPQDIECCGALEYYDKAFDRI
FQKQF.VRQKWDQKSQKP.DSSVEV.SDWEVKEEMDFPQLMKM.YL.VSE.QDIECCGALEYY.KAFD.I
RetrocopyFQKQFRVRQKWDQKSQKPQDSSVEVHSDWEVKEEMDFPQLMKMCYL*VSESQDIECCGALEYYNKAFDLI
ParentalTTRSEKPLRSIKRIFHTVTTTDDPVIRKLAKTQGNVFATDAILATLMSCTRSVYSWDIVVQRVGSKLFFD
T.RS.KPL.SIK.IFHT.TTT.DPVIRKLAKTQGNVFA..AILATL.SCTRSVYSWDIV.QRVGSKL.FD
RetrocopyTRRSWKPLWSIKCIFHTGTTTHDPVIRKLAKTQGNVFAPNAILATLISCTRSVYSWDIVIQRVGSKLLFD
ParentalKR-DNSDFDLLT-VSETANEPPQDEGNSFNSPRNLAMEATYINHNFSQQCLRM-GKERYNFPNPNPFVED
KR..NSDFDLL..VSETANEPPQD.GNSFNSP.NLAMEATYI.H.FSQQCLRM.GK.RYNFP.PNPFVED
RetrocopyKR<GNSDFDLLN>VSETANEPPQDAGNSFNSPHNLAMEATYIDHSFSQQCLRM<GKKRYNFPSPNPFVED
ParentalDMDKNEIASVAYRYRRWKLGDDIDLIVRCEHDGVMTGANGEVSFINIKTLNEWDSRHCNGVDWRQKLDSQ
DMDKNEIASVAYRY..WKLGDDIDLIVRC.HDGVMT.ANGEVSFINIKTLNE.DSRH.N.VDW.QKLDSQ
RetrocopyDMDKNEIASVAYRYCGWKLGDDIDLIVRCKHDGVMTRANGEVSFINIKTLNE*DSRH*NSVDWHQKLDSQ
ParentalRGAVIATELKNNSYKLAR-WTCCALLAGSEYLKLGYVSRYHVKD
RGA.IATELK.NSYKL.R..TCCAL.AGS.YLKLGYVS.YHVKD
RetrocopyRGAIIATELK-NSYKLSR<MTCCALQAGSKYLKLGYVSQYHVKD

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_991 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 2 parental genes, and 4 retrocopies.

Species Parental gene accession Retrocopies number
Macropus eugenii ENSMEUG000000045612 retrocopies
Otolemur garnettii ENSOGAG00000002978 2 retrocopies
retro_ogar_779, retro_ogar_991 ,



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