RetrogeneDB ID:

retro_ogar_2655

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873644.1:1427282..1429027(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DDX52
Ensembl ID:ENSOGAG00000000868
Aliases:None
Description:DEAD (Asp-Glu-Ala-Asp) box polypeptide 52 [Source:HGNC Symbol;Acc:20038]


Retrocopy-Parental alignment summary:






>retro_ogar_2655
ATGGACATCCAAGATCTCTTTCGCCGGCTCGGAACCGGGGCCAAATTTGACGTGAGACGCTTCTCGGCAGATGCAGCCAG
ATTCCAGAAAGGAAAAAAGGAAGTACGACTTTGATTCTTCAGAGGTGCTGCAGGGACTGGACGTTACTGGAAACAAGAAG
TCTTTCTCAGGTGAGTGTGGAGTGTCACAAACACACCAGGAGCTCCAAAATGAAGAGAAAAAAAGAAGAGAGTCTGACTG
AGAGAAAGAGGGAGCAGAAGAGGACAGAGGGAGAAGGTAACATCAGAAATTAGTTCTGAAGGAGAAGGTACCACTATACA
GTAGATGTCATCTGTGGATGCAAAGATTGAAGAGAAAAAAATGGAGGGAGAAAATACACTAACTTCAGAAAAATTGGAGC
ATCTCAGAAAGGAAAAGATAAACTTCTTCCGGAATAAGCACAAAATTCACATTCAAGGAACTGATCTTCCAGACCCAATT
ACTAAATTTCAGCAACTTGATTAGGAATATAAAATTAATTCTCAGCTGCTTCAAAATATTGTAGATTCAGGCTTCCAAAC
GCCTCCGCCAATCCAAATGCAGCTATTCCAGTTATGTTGCATGGTCGGGAACTTCTGGCTTCTACTCCTACTGGATCTGG
GAAAACTTTGGCTTTCAGTATTCCTATTTTAATGCAGCTAAAACAACCTGCAAATAAAGGCTTCAGAGCCCTGATTAGAT
CACCGACATGAGAACTTGCCAGCCAGTTTCACCGAGAGTTAATAAAAATCTCTGAGGGAGCAGGATTCATGATACACATG
ATCTACAAAGTGGCAGTTGCAGCCAAGAAATCTGGACCTAAATCATCTAAAAAGTTTGATATTCTTGTGACTACTCCAAA
TCAACTGATTTATTTACTAAAGCAAGATCCACCAGGAATAGACCTAATGAGTGTTGAATGGCTGGTAGTAGATGAGTCAG
ACAAACTATTTGCAGATGGCAAAACTGGGTTCAGAGACCAGCTGGCTTCCGTTTTTCTGGCCTGCACATCTCCCAAGGTC
AGAAGAGCTATGTTCAGTGCAACTTTTGCCTATGATGTTGAACAGTGGTGCAAACTCAACCTGGACAATGTCATTACTGT
ATCCATTGGAGCAAGGAATTCTGCAGTAGAAACTGTAGAACAAGAGCTTCTCTTTGTTGGGTCTGAGACTGGAAAACTTC
TGGCCGTGAGAGAACTTGTTAAAAAGGGTTTCAATCCACCTGTTCTTGTTTTTGGCCAGTCCATGGAAAGAGCCAAAGGA
CTTTTTCATGAACTCATATATGAAGGTATTAATGTGGATGTTATTCATGCAGAGAGAACACAGCAACAGAGAGATAACAC
AGTCCACAGCTTCAGAGCAGGAAAAATCTGGGTTCTTATTTGTACAGCTTTGCTAGCAAGAGGGATTGATTTTAAAGATG
TGAACTTGGTGATCAACTATGACTTCCCAACCAGCTCAGTGGAATATATCTACAGGACAGGTCGAACTGGAAGAGCAGGG
CATAAGGGAAAAGCTATTACGTTTTCCACCGAAGATGATAAACCATTATTAAGAAGTATCGCCAGTGTTACAACAGGCAG
GCTGTCCTGCCCCAGAATACATAAAGGGATTCCAAAAACTACTAAGCAAAGAAAGAAAAAGATGATTAAGAAGCCAGTGG
AAAGGGAGAGCATTAGTGCGACTCCAAAATATTTCTTGGAAAAAGCTAAGGATAAACTAAAAAGG

ORF - retro_ogar_2655 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 82.31 %
Parental protein coverage: 99.49 %
Number of stop codons detected: 4
Number of frameshifts detected 5


Retrocopy - Parental Gene Alignment:

ParentalMDVHDLFRRLGTGAKFDVRRFSADAARFQIGK-RKYDFDSSEVLQGLDFFGSKKSFPGECGASQTHQELQ
MD..DLFRRLGTGAKFDVRRFSADAARFQ.GK.RKYDFDSSEVLQGLD..G.KKSF.GECG.SQTHQELQ
RetrocopyMDIQDLFRRLGTGAKFDVRRFSADAARFQKGK>RKYDFDSSEVLQGLDVTGNKKSFSGECGVSQTHQELQ
ParentalNEEKKEESLTEGK-REKNRKKRKKAGFEPTTLEEGTTIQWMSSVNAKIEDKKVKGENKLTSEKLEHLRKE
NEEKK.......K.R...R..R.K...E.....EGTTIQ.MSSV.AKIE.KK..GEN.LTSEKLEHLRKE
RetrocopyNEEKKRRESD*EK<RGSRRGQREKVTSEISSEGEGTTIQ*MSSVDAKIEEKKMEGENTLTSEKLEHLRKE
ParentalKINFFRNKHKIHIQGTDLPDPITTFQQLDQEYKINSRLLQNIVDSGFQMPTPIQMQ-AIPVMLHGRELLA
KINFFRNKHKIHIQGTDLPDPIT.FQQLD.EYKINS.LLQNIVDSGFQ.P.PIQMQ.AIPVMLHGRELLA
RetrocopyKINFFRNKHKIHIQGTDLPDPITKFQQLD*EYKINSQLLQNIVDSGFQTPPPIQMQ<AIPVMLHGRELLA
ParentalSAPTGSGKTLAFSIPILMQLKQPANKGFRALIISPTRELASQIHRELIKVSEGTGFRIHMIHKAAVAAKK
S.PTGSGKTLAFSIPILMQLKQPANKGFRALI.SPT.ELASQ.HRELIK.SEG.GF.IHMI.K.AVAAKK
RetrocopySTPTGSGKTLAFSIPILMQLKQPANKGFRALIRSPT*ELASQFHRELIKISEGAGFMIHMIYKVAVAAKK
ParentalFGPKSSKKFDILVTTPNRLIYLLKQDPPGIDLTSVEWLVVDESDKLFEDGKTGFRDQLASIFLACTSPKV
.GPKSSKKFDILVTTPN.LIYLLKQDPPGIDL.SVEWLVVDESDKLF.DGKTGFRDQLAS.FLACTSPKV
RetrocopySGPKSSKKFDILVTTPNQLIYLLKQDPPGIDLMSVEWLVVDESDKLFADGKTGFRDQLASVFLACTSPKV
ParentalRRAMFSATFAYDVEQWCKLNLDNVITVSIGARISQREVLTLSLLFLLSWRTKDQALGNTIIKGFNPPVLV
RRAMFSATFAYDVEQWCKLNLDNVITVSIGAR.S..E.....LLF..S...K..A......KGFNPPVLV
RetrocopyRRAMFSATFAYDVEQWCKLNLDNVITVSIGARNSAVETVEQELLFVGSETGKLLAVRELVKKGFNPPVLV
ParentalFVQSIERAKELFHELIYEGINVDVIHAERTQQQRDNTVHSFRAGKIWVLICTALLARGIDFKGVNLVINY
F.QS.ERAK.LFHELIYEGINVDVIHAERTQQQRDNTVHSFRAGKIWVLICTALLARGIDFK.VNLVINY
RetrocopyFGQSMERAKGLFHELIYEGINVDVIHAERTQQQRDNTVHSFRAGKIWVLICTALLARGIDFKDVNLVINY
ParentalDFPTSSVEYIHRIGRTGRAGHKGKAITFFTEDDKPLLR-SVANVIQQAGCPVPEYIKGFQKLLSKE-KKR
DFPTSSVEYI.R.GRTGRAGHKGKAIT.F...D...L...V..V.QQAGCP.PEYIKGFQKLLSKE.KK.
RetrocopyDFPTSSVEYIYRTGRTGRAGHKGKAIT-FSTEDDKPLL>EVSPVLQQAGCPAPEYIKGFQKLLSKE<KKK
ParentalMIKKPLERESISTTPKYFLEKAKDKRKK
MIKKP.ERESIS.TPKYFLEKAKDK.K.
RetrocopyMIKKPVERESISATPKYFLEKAKDKLKR

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_2655 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
Canis familiaris ENSCAFG000000181451 retrocopy
retro_cfam_51,
Otolemur garnettii ENSOGAG00000000868 1 retrocopy
retro_ogar_2655 ,


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