RetrogeneDB ID:

retro_ogar_642

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873524.1:40706198..40708147(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000029097
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:POMGNT1
Ensembl ID:ENSOGAG00000003522
Aliases:None
Description:protein O-linked mannose beta1,2-N-acetylglucosaminyltransferase [Source:HGNC Symbol;Acc:19139]


Retrocopy-Parental alignment summary:






>retro_ogar_642
ATGGACGACTGGAAGCCCAGCCCCCTAATCAAGCCCTTTGGGACCCGGAAGAAAGGAAGCCGGTGTCTTACCTGGAAGTA
TAAACTGACAAAGCAGCGGGCCCTGCAGACATGCTGTCAGATAGCCGTCCTTTTCTTGCTGGTGACTGTCATTGCCTACA
TTAAGTTCATCCTGGACACTGAGTCAGCAAGCAGTGAAGCCAATGAAGACCCGGCGCCAGAACAAGACTATGATGAGGCC
CTAGGCTACCTGGAGCCCCACGTAGTGGTCTCCCACCGGGCCTGGCTGTGGAAGTATACTCGAGCCGCAGCAAAGTATAT
GTGGCAGTGGATGGTACCAGGGTGCTGGAATATGAGGCCCAGGAGCAGGGTGGAGGCATCCATGTCATTGTCCTCAACCA
GGCCACCGGCCATGTCATGGCAAAGCGGGTGTTTGATACATCCTGGCCTCATGAGGATGAGGCCATGGTGCTGTTCCTCA
ACAGGGTGGCACAAGGACGAGTGCTCATCTGTACTGTCAAGGATGAGGGCTCCTTCCACCTCAAGGACACGGCCAAGGCT
CTGCTAAGGAGCCTGGGCAGCCGTGCTGGCCCTGCCCTGGGCTGGAGGGACACCTGGGCCTTCGTGGGACGAAAAGGAGG
TCCTGTCTTTGGGGAGAAGCATTCTAAGTCACCTGCCTTCTCCTCCTGGGGGGACCCAGTCCTGCTGAAGACATATGTGC
CACTGAGCTCAGCTAAAGAGGCAGAGTGCCCCTGGGCAGACACAGAACTGAACCGTCGCCGCCGGCGCTTCTGTAGCAAA
GTTGAGGGCTATGGGAGTGTGTGCAGCTGCAAGGACCCCACACCCATCGAGTTCAGCCCTGACCCTCTCCCAGACAACAA
GGTCCTCAATGTGCCTGTGGCTGTCATTGCAGGGAACCGACCCAATCACCTGTACAGGATGCTGCGCTCTCTGCTGTCAG
CCCAGGGGGTGTCTCCCCAGATGATAACAGTTTTCATCGACGGCTACTATGAGGAACCGATGGATGTGGTGGCACTGTTG
GGTCTGAGGGGCATCCAGCACACTCCCGTCAGCATCAAGAATGCCCGCATATCTCAGCACTACAAGGCCAGCCTCACTGC
CACATTCAACCTGTTTCCGGAGGCTAAGTTTGCTGTGGTTCTGGAAGAGGATCTGGACATTGCTGTGGATTTTTTCAGTT
TCCTGAGCCAGTCCATCCACCTGCTAGAAGAGGATGACAGCCTGTACTGCATCTCTGCCTGGAATGACCAGGGATATGAA
CACACGGCTGAGGACCCAGCACTACTATCCCGTGTGGAGACCATGCCTGGGCTGGGCTGGGTGCTCAGGAAATCCTTATA
CAAGGAGGAGCTTGAGCCCAAGTGGCCCACACCAGAAAAGCGCTGGGACTGGGACATGTGGATGCGGATGCCAGAACAAC
GCAGGGGCCGAGAGTGCATCATCCCTGATGTTTCCCGATCCTACCACTTTGGCATTTTCGGCCTCAACATGAACCGCTAC
TTCCATGAGACCTACTTCAAGAAGCACAAGTTCAACACAGTTCCAGGTGTCCAGCTCAGGAACGTGGACAGTCTGAAGAA
AGAAGCTTATGAAGTGGAAATTCACAGGCTGCTCAGTGAGGCTGAGGTTCTGGACCACAGCAGGAACCCTTGTGAAGATT
CTTTCCTGCCAGACACAGAGGGCCACACCTATGTGGCCTTTATCCAGATGGAGAAAGATGATGACATTACTACCTGGATC
CAGCTTGCCAAGTGCCTCCATATCTGGGATGTGGATGTACGTGGCAACCACAAGGGCCTGTGGAGATTGTTTCGGAAGAA
GAACCACTTTCTGGTGGGGGGGGTCCCAGCCTCCCCCTACTCAGTGAAGAAGCCACCTTCAGTTACCCCTATTTTCCTGG
AGCCACCCCGAAAGGAAGAAGGAGCCCCA

ORF - retro_ogar_642 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 90.84 %
Parental protein coverage: 99.09 %
Number of stop codons detected: 0
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalMDDWKPSPLIKPFGARKKRSWYLTWKYKLTNQRALRRFCQTGAVLFLLVTVIVNIKLILDTRRAISEANE
MDDWKPSPLIKPFG.RKK.S..LTWKYKLT.QRAL...CQ..AVLFLLVTVI..IK.ILDT..A.SEANE
RetrocopyMDDWKPSPLIKPFGTRKKGSRCLTWKYKLTKQRALQTCCQI-AVLFLLVTVIAYIKFILDTESASSEANE
ParentalDPEPEQDYDEALGHLEP-PRRRGSGPRRVLDVEVYSSRSKVYVAVDGTTVLEDEAREQGRGIHVIVLNQA
DP.PEQDYDEALG.LEP.PR...SG....L.VEVYSSRSKVYVAVDGT.VLE.EA.EQG.GIHVIVLNQA
RetrocopyDPAPEQDYDEALGYLEP<PR---SGLPPGLAVEVYSSRSKVYVAVDGTRVLEYEAQEQGGGIHVIVLNQA
ParentalTGHVMAKRVFDTYSPHEDEAMVLFLNMVAPGRVLICTVKDEGSFHLKDTAKALLRSLGSQAGPALGWRDT
TGHVMAKRVFDT..PHEDEAMVLFLN.VA.GRVLICTVKDEGSFHLKDTAKALLRSLGS.AGPALGWRDT
RetrocopyTGHVMAKRVFDTSWPHEDEAMVLFLNRVAQGRVLICTVKDEGSFHLKDTAKALLRSLGSRAGPALGWRDT
ParentalWAFVGRKGGPVLGEKHSKSPALSSWGDPVLLKTDVPLSSAEEAECHWTDTELNRRRRRFCSKVEGYGSVC
WAFVGRKGGPV.GEKHSKSPA.SSWGDPVLLKT.VPLSSA.EAEC.W.DTELNRRRRRFCSKVEGYGSVC
RetrocopyWAFVGRKGGPVFGEKHSKSPAFSSWGDPVLLKTYVPLSSAKEAECPWADTELNRRRRRFCSKVEGYGSVC
ParentalSCKDPTPIEFSPDPLPDNKVLNVPVAVIAGNRPNYLYRMLRSLLSAQGVSPQMITVFIDGYYEEPMDVVA
SCKDPTPIEFSPDPLPDNKVLNVPVAVIAGNRPN.LYRMLRSLLSAQGVSPQMITVFIDGYYEEPMDVVA
RetrocopySCKDPTPIEFSPDPLPDNKVLNVPVAVIAGNRPNHLYRMLRSLLSAQGVSPQMITVFIDGYYEEPMDVVA
ParentalLFGLRGIQHTPISIKNARVSQHYKASLTATFNLFPEAKFAVVLEEDLDIAVDFFSFLSQSIHLLEEDDSL
L.GLRGIQHTP.SIKNAR.SQHYKASLTATFNLFPEAKFAVVLEEDLDIAVDFFSFLSQSIHLLEEDDSL
RetrocopyLLGLRGIQHTPVSIKNARISQHYKASLTATFNLFPEAKFAVVLEEDLDIAVDFFSFLSQSIHLLEEDDSL
ParentalYCISAWNDQGYEHTAEDPALLYRVETMPGLGWVLRKSLYKEELEPKWPTPEKLWDWDMWMRMPEQRRGRE
YCISAWNDQGYEHTAEDPALL.RVETMPGLGWVLRKSLYKEELEPKWPTPEK.WDWDMWMRMPEQRRGRE
RetrocopyYCISAWNDQGYEHTAEDPALLSRVETMPGLGWVLRKSLYKEELEPKWPTPEKRWDWDMWMRMPEQRRGRE
ParentalCIIPDVSRSYHFGIVGLNMNGYFHEAYFKKHKFNTVPGVQLRNVDSLKKEAYEVEIHRLLSEAEVLDHSR
CIIPDVSRSYHFGI.GLNMN.YFHE.YFKKHKFNTVPGVQLRNVDSLKKEAYEVEIHRLLSEAEVLDHSR
RetrocopyCIIPDVSRSYHFGIFGLNMNRYFHETYFKKHKFNTVPGVQLRNVDSLKKEAYEVEIHRLLSEAEVLDHSR
ParentalNPCEDSFLPDTEGHTYVAFIQMEKDDDFTTWTQLAKCLHIWDLDVRGNHRGLWRLFRKKNHFLVVGVPAS
NPCEDSFLPDTEGHTYVAFIQMEKDDD.TTW.QLAKCLHIWD.DVRGNH.GLWRLFRKKNHFL....PAS
RetrocopyNPCEDSFLPDTEGHTYVAFIQMEKDDDITTWIQLAKCLHIWDVDVRGNHKGLWRLFRKKNHFLXXXXPAS
ParentalPYSVKKPPSVTPIFLEPPPKEEGAP
PYSVKKPPSVTPIFLEPP.KEEGAP
RetrocopyPYSVKKPPSVTPIFLEPPRKEEGAP

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_642 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 3 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000133221 retrocopy
retro_btau_447,
Otolemur garnettii ENSOGAG00000003522 2 retrocopies
retro_ogar_1864, retro_ogar_642 ,


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