RetrogeneDB ID:

retro_ogar_1864

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873570.1:10810080..10812060(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000027033
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_1864
ATGGACGACCGGAAGCCCAGCCCCCGAACGGAGCCCTTTGGGGCCTGGAAAAAACGAAGCTGGTATCTTACCTGGAAGTA
TAAACTGACAAACCAGCGGGCCCTGTGGAGATTCTGTAAGATAGGGGCCATGTTTTTCTTGCTGGTGACTGTCATTGTCA
ACATTAAGTTGATCCTGGACATTTGGCGAGCAATCAGCAAAGCCAGTGAACACCTGGCACCCCAACAAGGCTATGATAAG
ACCCTAGGTCCCTTAGCGACCCCATTGCAAAGAAGCAATGGTTCCCGGCGGCTCCTGCAATTGGAAGTGTACTCGAGCCG
CAGCAAAGTTTATGTGGCAGTGAATGGTACCGTGGTGCTGGGGAATGAGGCCCAGAAGCAGCGTCGAGGCATCCATATCA
TTGTCCTCAACCAGGGCACAGGCCAGGTGATGGCAAAGCGCGTGTTTGACACATACTTACCTCATGAGGATGAGGGCATG
GTGTCATTCCTTAAAATGGTAACACCCGGACGAGTGCTCATCTGTACTGTCAAGGATGAGGGCTCCTTCCACCTCAAGGA
CATGGCCAAGGCTCTGCTAAGAAGCCTGGGCAGCCATGCTGGCCCTGCCCTGGGCTGGAGGGACACCTGGGCCTTCGTGG
TACAAAAAGGAGGTCCTGTCCTTGGGGAGGGGAATTCTAAGTCACCTACCACCTCTTCCTGGGGGAACCCAATCCGGCTG
AAGTTAAAAATGCTACTGACCTCACCTGAAAATGCAAGGTGCCACTGGGCAGACACAGAGCTGAACCGTCGCCGCGGGCG
CTTCTGCAGCAAATTTGAGGGCTATGGGAGTGTGTGCAGCTGCAAGGATCCCACACCCATCGAGTTCAGCCCTGACCCTC
TCCCAGACAACAAGGTCCTCAATGTGCCTGTGGCTGTCATGGCAGGGAACCGACCCAGTTACCTGTACAGGATGCTTCGT
TCACTGCTGTCAGCCCCGGGGGTGTCTCCCCAGATGATAACAGTTTTCATTGATGGCTACTATGAGGAACCTATGGATGT
GGTGGCACTGTTTGGTCTGAGGGGCATCCAGCACACTCCTGTCAGCGTCAAGAATGCCCGCGTATCTCAGCACTACAAGA
CCAGCCTCACTGCCATATTCAACCTATTTCCAGAGGCTAAGTTTGCTGTGGTTTTGGAAGAGGACCTGGAGATTTCTGTG
GATTTTTTCAGTTTCCTGAGCCAGTCTATCCACCTGCTAGAAGAGGATGACAGCGTGTACTGCATCTCTGCTTGGAATGA
CCAGGGATATGAACACACGGCTGAGGACCCAGCACTACTATACCGTGTGGAGACCATGCCTGGGCTGGGCTGGGTGCTCA
GGAAATCCTTATACAAGGAGGAGCTTGAGCCCAAGTGGCCCACACCAGACAAGTTCTGGGACTGGGACATGTGGATGCGA
ATGCCAGCACAACGCAAGGGCCGAGAGTGCGTCATCCCTGATGTTTCCCGATCCTACCACTTTGGCATTTTTGGCCTCAA
CATGAACCGCTTCTTCCATGAGACCTACTTTAAGAAGCACAAGTTCAACACAGTTCCAGGTGTCCAGCTCAGGAACGTGG
ACAGTCTGAAGAAAGACGCTTATGAAGTGGAAATTCACAGGCTGCTCAGTGAGGCTGAGGTTTTGAACCACAGCAGGAAC
CCCTGTGAAGACTCTTTCCTACCAGACACGGAGGGCCACACCTACGTGGCCTTTATCCAGATGCAGAAAGATGATGACTT
CACCACCTGGATCCAGCTTGCCAAGTGCCTCCATATCTGGGACTTGGATGTGCGTGGCAACCACAGGGGCCTCTGGAGGT
TGTTTCGGAAGAAAAACCACTTCCTGGTGGTAGGGGTCCCAGCCTCCCCCTACTCAGTGAAGAAGCCACCATCAGTTACC
CCAATTTTCCTGTAGCCACCCCCAAAGGAGGAGGGAACTCTAGGAGCTGCAGAATAGACA

ORF - retro_ogar_1864 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 85.45 %
Parental protein coverage: 100. %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMDDWKPSPLIKPFGARKKRSWYLTWKYKLTNQRALRRFCQTGAVLFLLVTVIVNIKLILDTRRAISEANE
MDD.KPSP...PFGA.KKRSWYLTWKYKLTNQRAL.RFC..GA..FLLVTVIVNIKLILD..RAIS.A.E
RetrocopyMDDRKPSPRTEPFGAWKKRSWYLTWKYKLTNQRALWRFCKIGAMFFLLVTVIVNIKLILDIWRAISKASE
ParentalDPEPEQDYDEALGHLEPPRRRGSGPRRVLDVEVYSSRSKVYVAVDGTTVLEDEAREQGRGIHVIVLNQAT
...P.Q.YD..LG.L..P..R..G.RR.L..EVYSSRSKVYVAV.GT.VL..EA..Q.RGIH.IVLNQ.T
RetrocopyHLAPQQGYDKTLGPLATPLQRSNGSRRLLQLEVYSSRSKVYVAVNGTVVLGNEAQKQRRGIHIIVLNQGT
ParentalGHVMAKRVFDTYSPHEDEAMVLFLNMVAPGRVLICTVKDEGSFHLKDTAKALLRSLGSQAGPALGWRDTW
G.VMAKRVFDTY.PHEDE.MV.FL.MV.PGRVLICTVKDEGSFHLKD.AKALLRSLGS.AGPALGWRDTW
RetrocopyGQVMAKRVFDTYLPHEDEGMVSFLKMVTPGRVLICTVKDEGSFHLKDMAKALLRSLGSHAGPALGWRDTW
ParentalAFVGRKGGPVLGEKHSKSPALSSWGDPVLLKTDVPLSSAEEAECHWTDTELNRRRRRFCSKVEGYGSVCS
AFV..KGGPVLGE..SKSP..SSWG.P..LK....L.S.E.A.CHW.DTELNRRR.RFCSK.EGYGSVCS
RetrocopyAFVVQKGGPVLGEGNSKSPTTSSWGNPIRLKLKMLLTSPENARCHWADTELNRRRGRFCSKFEGYGSVCS
ParentalCKDPTPIEFSPDPLPDNKVLNVPVAVIAGNRPNYLYRMLRSLLSAQGVSPQMITVFIDGYYEEPMDVVAL
CKDPTPIEFSPDPLPDNKVLNVPVAV.AGNRP.YLYRMLRSLLSA.GVSPQMITVFIDGYYEEPMDVVAL
RetrocopyCKDPTPIEFSPDPLPDNKVLNVPVAVMAGNRPSYLYRMLRSLLSAPGVSPQMITVFIDGYYEEPMDVVAL
ParentalFGLRGIQHTPISIKNARVSQHYKASLTATFNLFPEAKFAVVLEEDLDIAVDFFSFLSQSIHLLEEDDSLY
FGLRGIQHTP.S.KNARVSQHYK.SLTA.FNLFPEAKFAVVLEEDL.I.VDFFSFLSQSIHLLEEDDS.Y
RetrocopyFGLRGIQHTPVSVKNARVSQHYKTSLTAIFNLFPEAKFAVVLEEDLEISVDFFSFLSQSIHLLEEDDSVY
ParentalCISAWNDQGYEHTAEDPALLYRVETMPGLGWVLRKSLYKEELEPKWPTPEKLWDWDMWMRMPEQRRGREC
CISAWNDQGYEHTAEDPALLYRVETMPGLGWVLRKSLYKEELEPKWPTP.K.WDWDMWMRMP.QR.GREC
RetrocopyCISAWNDQGYEHTAEDPALLYRVETMPGLGWVLRKSLYKEELEPKWPTPDKFWDWDMWMRMPAQRKGREC
ParentalIIPDVSRSYHFGIVGLNMNGYFHEAYFKKHKFNTVPGVQLRNVDSLKKEAYEVEIHRLLSEAEVLDHSRN
.IPDVSRSYHFGI.GLNMN..FHE.YFKKHKFNTVPGVQLRNVDSLKK.AYEVEIHRLLSEAEVL.HSRN
RetrocopyVIPDVSRSYHFGIFGLNMNRFFHETYFKKHKFNTVPGVQLRNVDSLKKDAYEVEIHRLLSEAEVLNHSRN
ParentalPCEDSFLPDTEGHTYVAFIQMEKDDDFTTWTQLAKCLHIWDLDVRGNHRGLWRLFRKKNHFLVVGVPASP
PCEDSFLPDTEGHTYVAFIQM.KDDDFTTW.QLAKCLHIWDLDVRGNHRGLWRLFRKKNHFLVVGVPASP
RetrocopyPCEDSFLPDTEGHTYVAFIQMQKDDDFTTWIQLAKCLHIWDLDVRGNHRGLWRLFRKKNHFLVVGVPASP
ParentalYSVKKPPSVTPIFLEPPPKEEGAPGAAEQT
YSVKKPPSVTPIFL.PPPKEEG..GAAE.T
RetrocopyYSVKKPPSVTPIFL*PPPKEEGTLGAAE*T

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_1864 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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