RetrogeneDB ID:

retro_ogar_1854

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873570.1:4581547..4584485(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000025137
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:EIF4ENIF1
Ensembl ID:ENSOGAG00000012272
Aliases:None
Description:eukaryotic translation initiation factor 4E nuclear import factor 1 [Source:HGNC Symbol;Acc:16687]


Retrocopy-Parental alignment summary:






>retro_ogar_1854
ATGGGTAGGAGAAGCGTGGGGGAAACAGAAAATGGAGATGCTTTTCTTGACCTGAAGAGGCTGCCGGCTTCCAAATGCCC
CCATCGCTATCCAAAAGAGGAACTTTTGGATAAAAGAACGCCCCCATTCCAAACAGAGGCCTTCATGCCTTTCCGAAAAA
TATGACAGTGATGGTGTCTGGGACCCTGAGAGGTGGCATGCCTCTCTCTACCTAGCATCAGGACGGAGTTCACCAGTAGA
AAATCTGAAGAAAGAGCCGGATTCAGACCGGCCTTCTCTGGTGCGCAGGATAGTAGATCCACGCGAGCGGGTGAAAGAAG
ACGACTTAGATGTGGTTCTCAGCCCACAGAGACGCAGCTTTGGAGGGGGCTGCCACGTGGCAGCTGCTGTGAGCTCCTGG
CGCTCTTTAGAGAAAGATGGCGATGGGCTTCGTTTGCTGGGTGGACGTAGGATTGGCAGTGGGAGGATAATCTCTGCCCG
GACCTTTGAGAAGGATCACCGTCTTAGTGATAAGGACCTCCGGGACTTGAGAGACAGAGACCGTGAGAGGGACTACAAGG
ACAAGCGTTTCAGGACAGAGTTTGGGGATAGTAAGTGTGTCTTTGGTGAGCGGAGAAGAAATGATTCTTATACAGAAGAA
GAACCGGAGTGGTTCTCAGCTGGACCCACAAGTCAATCTGAAACCATTGAACTGACTGGCTTTGATGATAAGATATTAGA
AGAAGATCACAAAGGAAGAAAAAGAACACGGCGACGAACAGCCTCTGTGAAGGAAGGAATAGTCGAGTGCAATGGAGGAG
TGGCCGAAGAGGATGAGGTGGAGGTCATCCTTGCACAGGAACCTGCTGCTGATCAGGAAGTGCCAAGGCATGCTGTCTTA
CCTGAGCAGTCTCCAGGAGAATTTGATTTTAATGAGTTCTTTAACCTTGATAAGGTTCCATGCTTGGCTTCGATGATAGA
AGATGTTTTGGGAGAAGGGTCAGTCTCTGCCAGTCGTTTCAGCAGGTGGTTCTCTAATCCAAGGGAAGCCGAGCCAGCAG
TCTTGGGTCAATACCCCATGAAGAACTGGAGAGACTCCCAGGTCTGGAGCAAGCCATCCTCTCTCCTGGACAGAACTCGG
GGAATTATTTTGCTCCTATACCATTGGAAGACCACTCTGAAAATAAAGTGGATATTTTAGAAATGCTTCAGAAAGCCAAA
GTGGATTTAAAACCTCTTCTTTCCAACCTTTCTGCAAATAAAGAAAAACTTAAAGAGAGCTCACATTCAGGGGTTGTACT
GTCAGTGGAAGAGGTAGAAGCAGGACACAAGGGTTTGAAGGTGGATCAGCAAGTGAAAAATTCAACTCCCTTCATGGCAG
AACATCTAGAAGAGACCCTGTGTGCTGTAACCAGCAATCGACAACTCAAGAAGGATGGAGACATGACAGCTTTCAACAAG
CTAGTGAGCACCATGAAGGCAAGTGGGACTTTGCCTCCTCAGCCCAAAGTCGGCCGAAATCTTGAAAGCCATTTGATGTC
CCCCGCTGAGATTCCAGGGCAGCCTGTCCCTAAGAACATCCTACAGGAACTTCTGGGCCAACCAGTTCAGAGACCTACTT
CTTCTAATCTTCTGAGTGGCCTTATGGGGAGCTTGGCGCCTACAACATCTTTACTGGGCCAAAGAGCACCCTCTCTTCCC
TTGTCACAGGTGTTTCAAACTCGAGCAGCCTCAGCAGACTACCTTCGCCCAAGAATACCATCACCAATTGCACGTTTTAC
ACCAGGACCACAGCAGCTACTTGGAGACCCATTCCAAGGCATGCGCAAGCCCATGAGCCCTGTCACAGCCCAGATGAGCC
AGCTAGAGTTACAACAGGCAGCTTTGAAAGGGCTGGCCTTGCCCCATGACCTTGCCGTACAGGCCACAAACTTCTACCAG
CCTGGTTTTGGCAAACCACAGATGGACAGAACCAGAGATGGATTCAGAAACAGGCAACAGCGAGTGACCAAGTCACCAGC
ACCTGTGCACCGAGGGAATTCCTCTTCCCCTGCCCCCGCTGCCTCCATCACAAGCATGCTTTCTCCTTTTACCCCTACCT
CAGTGATTCCTAAGATGTACGAGAGCAAAGAGAAAAAGCAAGGAGGAGCCAGTATCTGGAAAAGCAGCTCTTGGTGATAG
TAAAGGGGATACTCAAAAGGCCAGTGAAGAAAAACTCCTGTCATCCAATTCTGTACCCAGTGTTGATCGAGACACTTCTC
CCACTACAAATCCCAAATTGTCAACGTTACAGCGGTCTTTATGTTCCACCCCCTTGTCCCAGACCAATCGTTACACCAAA
GAACAAGATTACCGACCTAAAGCAACTGGGAGAAAAACACCCACCCTGGCGTCCCCAGTTCCAGGAACACCTTTTCTCCA
CCCTGTCCACCAAGTTCCCCTTGTCCCCCATGTCCCTATTGTTCGGCCTGCTCACCAGCTTCACCCCGGGGTGGTGCAAA
GGATGCTGGCCCAGGGAATACATCCACAGCATCTTTCAAGTTTGCTTCAAGCTGGTGTGCTTCCTCCTGGGATGGACCTG
ACCCATTTACAGGGACTATCTGGCCCAATCCTGGGTCAGCCCTTTTACCCTTTACCTGCTGCTAGTCACCCTCTCTTAAA
CCCTCGACCTGGGACTCCACTGCGTCTGGCAATGATGCAGCAGCAGCTACCGCGCTCAGTTCGGCGTCCTCCAGGCTCTG
GTTCCCAGGCAGCAGCTGTCAGTGTTCAGATGCTGCCTCAGAATGTGCCCAGCCGCTCAGGCCTGCCTCACGTGCACTCC
CAGCTAGAGCATCGCCCCAGTCAAAGGAGCAGCTCCCCTGTGGGCCTCGCCAAATGGTTTGGCTCAGATGTGCTACAGCA
GCCCCTGCCATCCATGCCTGCCAAAGTCATCAGTGTGGATGAATTGGAATACCGACAG

ORF - retro_ogar_1854 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 93.83 %
Parental protein coverage: 100. %
Number of stop codons detected: 0
Number of frameshifts detected 3


Retrocopy - Parental Gene Alignment:

ParentalMDRRSVGETENGDAFLDLKRLPASKCPHRYTKEELLDIKERP-HSKQRPSCLSEKYDSDGVWDPEKWHAS
M.RRSVGETENGDAFLDLKRLPASKCPHRY.KEELLD.K..P.HSKQRPSCLSEKYDSDGVWDPE.WHAS
RetrocopyMGRRSVGETENGDAFLDLKRLPASKCPHRYPKEELLD-KRTP>HSKQRPSCLSEKYDSDGVWDPERWHAS
ParentalLYPASGRSSPVENLKKELDSDRPSLVRRIVDPRERVKEDDLDVVLSPQRRSFGGGCHVTAAVSSRRSGSP
LY.ASGRSSPVENLKKE.DSDRPSLVRRIVDPRERVKEDDLDVVLSPQRRSFGGGCHV.AAVSS.RS...
RetrocopyLYLASGRSSPVENLKKEPDSDRPSLVRRIVDPRERVKEDDLDVVLSPQRRSFGGGCHVAAAVSSWRS---
ParentalLEKDGDGLRLLGGRRIGSGRIISARTFEKDHRLSDKDLRDLRDRDRERDYKDKRFRREFGDSKRVFGERR
LEKDGDGLRLLGGRRIGSGRIISARTFEKDHRLSDKDLRDLRDRDRERDYKDKRFR.EFGDSK.VFGERR
RetrocopyLEKDGDGLRLLGGRRIGSGRIISARTFEKDHRLSDKDLRDLRDRDRERDYKDKRFRTEFGDSKCVFGERR
ParentalRNDSYTEEEPEWFSAGPTSQSETIELTGFDDKILEEDHKGRKRARRRTASVKEGIVECNGGVAEEEEVEV
RNDSYTEEEPEWFSAGPTSQSETIELTGFDDKILEEDHKGRKR.RRRTASVKEGIVECNGGVAEE.EVEV
RetrocopyRNDSYTEEEPEWFSAGPTSQSETIELTGFDDKILEEDHKGRKRTRRRTASVKEGIVECNGGVAEEDEVEV
ParentalILAQEPAADQEVPRDAALPEQSPGEFDFNEFFNLDKVPCLASMIEDVLGEGSVSASRFSRWFSNPSRSGS
ILAQEPAADQEVPR.A.LPEQSPGEFDFNEFFNLDKVPCLASMIEDVLGEGSVSASRFSRWFSNP.....
RetrocopyILAQEPAADQEVPRHAVLPEQSPGEFDFNEFFNLDKVPCLASMIEDVLGEGSVSASRFSRWFSNPRE--A
ParentalRSSSLGSTP-HEELERLAGLEQAILSPGQNSGNYFAPIPLEDHSENKVDILEMLQKAKVDLKPLLSSLSA
....LG..P.HEELERL.GLEQAILSPGQNSGNYFAPIPLEDHSENKVDILEMLQKAKVDLKPLLS.LSA
RetrocopyEPAVLGQYP<HEELERLPGLEQAILSPGQNSGNYFAPIPLEDHSENKVDILEMLQKAKVDLKPLLSNLSA
ParentalNKEKLKESSHSGVVLSVEEVEAGLKGLKVDQQVKNSTPFMAEHLEETLSAVTSNRQLKKDGDMTAFNKLV
NKEKLKESSHSGVVLSVEEVEAG.KGLKVDQQVKNSTPFMAEHLEETL.AVTSNRQLKKDGDMTAFNKLV
RetrocopyNKEKLKESSHSGVVLSVEEVEAGHKGLKVDQQVKNSTPFMAEHLEETLCAVTSNRQLKKDGDMTAFNKLV
ParentalSTMKASGTLPSQPKVSRNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTSSNLLSGLMGSLEPTTSLL
STMKASGTLP.QPKV.RNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTSSNLLSGLMGSL.PTTSLL
RetrocopySTMKASGTLPPQPKVGRNLESHLMSPAEIPGQPVPKNILQELLGQPVQRPTSSNLLSGLMGSLAPTTSLL
ParentalGQRAPSPPLSQVFQTRAASADYLRPRIPSPIG-FTPGPQQLLGDPFQGMRKPMSPVTAQMSQLELQQAAL
GQRAPS.PLSQVFQTRAASADYLRPRIPSPI..FTPGPQQLLGDPFQGMRKPMSPVTAQMSQLELQQAAL
RetrocopyGQRAPSLPLSQVFQTRAASADYLRPRIPSPIARFTPGPQQLLGDPFQGMRKPMSPVTAQMSQLELQQAAL
ParentalEGLALPHDLAVQATNFYQPGFGKPQMDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSPSFT
.GLALPHDLAVQATNFYQPGFGKPQMDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSP.FT
RetrocopyKGLALPHDLAVQATNFYQPGFGKPQMDRTRDGFRNRQQRVTKSPAPVHRGNSSSPAPAASITSMLSP-FT
ParentalPTSVIRKMYESKE-KSKEEPVSGKAALGDSKEDTQKASEEKLLSSNSVPSVDRDASPTTNPKLSTLQRSS
PTSVI.KMYESKE.KSKEEPVSGKAALGDSK.DTQKASEEKLLSSNSVPSVDRD.SPTTNPKLSTLQRS.
RetrocopyPTSVIPKMYESKE>KSKEEPVSGKAALGDSKGDTQKASEEKLLSSNSVPSVDRDTSPTTNPKLSTLQRSL
ParentalCSTPLSQTNRYTKEQDYRPKATGRKTPTLVSPVQGTPFLRPVHQVPLVPHVPIVRPAHQLHPGLVQRMLA
CSTPLSQTNRYTKEQDYRPKATGRKTPTL.SPV.GTPFL.PVHQVPLVPHVPIVRPAHQLHPG.VQRMLA
RetrocopyCSTPLSQTNRYTKEQDYRPKATGRKTPTLASPVPGTPFLHPVHQVPLVPHVPIVRPAHQLHPGVVQRMLA
ParentalQGIHPQHLSSLLQAGVLPPGMDLTHLQGISGPILGQPFYPLPAASHPLLNPRPGTPLHLAMMQQQLQRSV
QGIHPQHLSSLLQAGVLPPGMDLTHLQG.SGPILGQPFYPLPAASHPLLNPRPGTPL.LAMMQQQL.RSV
RetrocopyQGIHPQHLSSLLQAGVLPPGMDLTHLQGLSGPILGQPFYPLPAASHPLLNPRPGTPLRLAMMQQQLPRSV
ParentalLHPPGSGSQAAAVSVQTPPQNVPSRSGLPHMHSQLEHRPSQRSSSPVGLAKWFGSDVLQQPLPSMPAKVI
..PPGSGSQAAAVSVQ..PQNVPSRSGLPH.HSQLEHRPSQRSSSPVGLAKWFGSDVLQQPLPSMPAKVI
RetrocopyRRPPGSGSQAAAVSVQMLPQNVPSRSGLPHVHSQLEHRPSQRSSSPVGLAKWFGSDVLQQPLPSMPAKVI
ParentalSVDELEYRQ
SVDELEYRQ
RetrocopySVDELEYRQ

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






RNA-Seq - click to see more details

Otolemur garnettii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Otolemur garnettii was not studied using ChIP-Seq data.

EST - click to see more details

Otolemur garnettii was not studied using EST data.

TSS - click to see more details

Otolemur garnettii was not studied using FANTOM5 data.

Lab - click to see more details

retro_ogar_1854 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 2 retrocopies.

Species Parental gene accession Retrocopies number
Microcebus murinus ENSMICG000000054701 retrocopy
retro_mmur_1508,
Otolemur garnettii ENSOGAG00000012272 1 retrocopy
retro_ogar_1854 ,


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