RetrogeneDB ID:

retro_ogar_3051

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873705.1:46199..48226(-)
Located in intron of:ENSOGAG00000008981
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:DDX20
Ensembl ID:ENSOGAG00000010503
Aliases:None
Description:DEAD (Asp-Glu-Ala-Asp) box polypeptide 20 [Source:HGNC Symbol;Acc:2743]


Retrocopy-Parental alignment summary:






>retro_ogar_3051
ACCATGATGGTGGCATTTGGAGCCCCGGTGGCCTTAGCAGCAGTGGAGAGCAGTATGCAGGTGGAGCGTGTTGCCATGCA
GGTCTTGGCCCCAAAGCCACTCCCTAGGCCCTTGCGGAGCCTGCATACGGCTCACTGTATCGGAGGCCCTCTGACCTGCA
CCCGAGACGTACTATTGGCAGAACCAGCGGACTTTGAGTCATTACTTCTTTCATTGCCGGTGCTGGAGGGGCTGCGGGCA
GCCGGCTTTGAGACACCCTCACTGGTGCAGCTGAAGGCCATCCCGCTGGGGCGCTGTGGGCTTGATTTAATTGTTCAGGC
TAAATCTGGCACTGAGAAAACCTATGTATTTTCCACCATTGCTTTGGGCTTTCTTGTTCTTGAAAATTTAAGTACCCAGA
TTATGATCTTGGCTCCTACCAGAGAGATTGCTGTACAGATACATTCTGTTATTACAGCTATTGGAATCAAAATGGAAGGC
TTAGAGTGTCATGTCTTCCTTGGAGGGACCTCAATGTCAGAAGACAAAACCAGACTTAAAAAATGTCATATTGCTGTTGG
ATCTCCTGGCAGAATGAAATAACTTGTAGAACCGGACTATTTGAATCCAGGCAGAATAGATCTCTTTATTCTTGATGAAG
CAGATACACTCTTAGAAGAAGGCAGCTTCCAGGAAAAAATTAATTGGATTTATTCTTCCTTGCCTGCCAGTAGACAGATG
TTAGCCATGTCAACTACTTACTCTGAATTTTTGGCTAATGCTTTGACAAAGTACATGAGAGATCCCACTTTCATGAGACT
GAATTCCAGTGATCCATGTATGATAGCTTTGAAGCAATATTACAAAACTGTCAATTCATATCCTTTGGCTCATAGGATTT
TTGAGGAAAAGGCTCAGCATTTACAGGAGCTGTTCAGCAGAATTCCATTTAATCAAGCTTTAGTCTTTTCTAATTTGCAC
AGCAGAGCACAACATTTGGCTGATATCTTTTCTTCTAAAGGCTTTCCTGCTGAATGTATTTCAGGCAACATGAATCAGAA
TCAGCATCTTGACGCTATGGCTAAACTGAAGCAGTTTCATTGCAGAGTCCTCATTTCTACAGGTTTGATTTCCTGTGGGA
TTGATGCCCAGAAGGTGAATCTTGTAAATTTGGCTGTATCATTGAACTGAGAGACATATATGCATCAGATTGGCAGAGTT
AGCCATTTTGGTACCTTGGGACTGACAGTGACCTACTGTTGCTGGGGAGAAGAAGAAGATGTAATGATGAAAATTGCCCA
GAAATGTAATATCAACCTTATCCCCTTACCAGATCCCATTCATCCTGGTCTGATGGCAGAATGTTTGGATTGAGATGTGG
AATTTAAAGCAGCTGTGGATACCTATGGCTTAGCAAATGTACCTACCCAACCCCTAAAAAAGCAAATTCAAAAAATGGAG
AGAAACTTTCAAACTCAGAAAGCTCATGGTAACCACTTGGCTTCTTCTAGAAATACTTCTGTATCTGCACAATCAACCAA
ATAAAAAAATAATACCAAACAAAAACTTCCTTTGAAAAGCCACTCAGAGTATTGAGTAATAGAAAAAGCAATGTCTCCAA
AAGAACTACAATTGGAAGAGCAGTTGAAGAGTTCTGTTCAGGCCCCTATTGAGAACTCTACCAACAGTCAGCACCAGGTC
ACAAATGCCTTACCAGTGTCACTCCCCCAAATTTCTTGTCTGTCTTCCTTTAAAAACCACTAGCTGTACACTTTGACTTT
TGCAGAGTTGGTAAAAGATTATTAACACTATATTAAAGAGGGATTAGAGAAACCTGTGGAAGTCATTAGGCACTATACAG
GTCCTGGGGACCAGACTGTGAATCCTCAAAATGATTTTGTGAAAAATAGAGTTCCTGGAGAGTCCAGATATTGGCAAGTA
GTGACAGTGATTCTTACAGCTCAAGGACTTCATCCTAGAGCAAAGGAAATAAGTCATACTTGGAAGGCTCTTCAGATCCT
CAGCTGAAAGATTCTGAGTCTGCTCCT

ORF - retro_ogar_3051 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.41 %
Parental protein coverage: 82.46 %
Number of stop codons detected: 8
Number of frameshifts detected: 1


Retrocopy - Parental Gene Alignment:

ParentalTMAAAFEGSVALATVESGMQAERVAAQVSAPEPPAGPVRSLRTAHDVGGPRTRTGDVLLAEPADFESLLL
TM..AF...VALA.VES.MQ.ERVA.QV.AP.P...P.RSL.TAH..GGP.T.T.DVLLAEPADFESLLL
RetrocopyTMMVAFGAPVALAAVESSMQVERVAMQVLAPKPLPRPLRSLHTAHCIGGPLTCTRDVLLAEPADFESLLL
ParentalSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLADLIVQAKSGTGKTCVFSTIALDSLVLENLSTQILILAP
S.PVLEGLRAAGFE.PS.VQLKAIPLGRCGL.DLIVQAKSGT.KT.VFSTIAL..LVLENLSTQI.ILAP
RetrocopySLPVLEGLRAAGFETPSLVQLKAIPLGRCGL-DLIVQAKSGTEKTYVFSTIALGFLVLENLSTQIMILAP
ParentalTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRLF
TREIAVQIHSVITAIGIKMEGLECHVF.GGT..S.DKTRLKKCHIAVGSPGR.K.L.E.DYLNPG.I.LF
RetrocopyTREIAVQIHSVITAIGIKMEGLECHVFLGGTSMSEDKTRLKKCHIAVGSPGRMK*LVEPDYLNPGRIDLF
ParentalILDEADKLLEEGSFQEQINWIYSSLPTSKQMLAVSATYPEFLANALTKYMRDPTFVRLNSSDPSLIGLKQ
ILDEAD.LLEEGSFQE.INWIYSSLP.S.QMLA.S.TY.EFLANALTKYMRDPTF.RLNSSDP..I.LKQ
RetrocopyILDEADTLLEEGSFQEKINWIYSSLPASRQMLAMSTTYSEFLANALTKYMRDPTFMRLNSSDPCMIALKQ
ParentalYYKIVNSYPLAHKIFEEKAQHLQELFSRIPFNQALVFSNLHSRAQHLADILSSKGFPAECISGNMNQNQR
YYK.VNSYPLAH.IFEEKAQHLQELFSRIPFNQALVFSNLHSRAQHLADI.SSKGFPAECISGNMNQNQ.
RetrocopyYYKTVNSYPLAHRIFEEKAQHLQELFSRIPFNQALVFSNLHSRAQHLADIFSSKGFPAECISGNMNQNQH
ParentalLDAMAKLKQFHCRVLISTDLTSRGIDAEKVNLVVNLDVPLDWETYMHRIGRAGRFGTLGLTVTYCCRGEE
LDAMAKLKQFHCRVLIST.L.S.GIDA.KVNL.VNL.V.L..ETYMH.IGR...FGTLGLTVTYCC.GEE
RetrocopyLDAMAKLKQFHCRVLISTGLISCGIDAQKVNL-VNLAVSLN*ETYMHQIGRVSHFGTLGLTVTYCCWGEE
ParentalENVMMKIAQKCNINLLPLPDPIPPDLMEECLDWDVEVKAAVHTYGLANVPSQPLKKQIQKMERTFQTQKA
E.VMMKIAQKCNINL.PLPDPI.P.LM.ECLD.DVE.KAAV.TYGLANVP.QPLKKQIQKMER.FQTQKA
RetrocopyEDVMMKIAQKCNINLIPLPDPIHPGLMAECLD*DVEFKAAVDTYGLANVPTQPLKKQIQKMERNFQTQKA
ParentalHGNHLA-SRNTSVSAQSVKSKNNTKQKLPVKSHSECGVIEKAVSPKELRLEEQLKSSVQAPVENSTNSQH
HGNHLA.SRNTSVSAQS.K.KNNTKQKLP.KSHSE..VIEKA.SPKEL.LEEQLKSSVQAP.ENSTNSQH
RetrocopyHGNHLASSRNTSVSAQSTK*KNNTKQKLPLKSHSEY*VIEKAMSPKELQLEEQLKSSVQAPIENSTNSQH
ParentalQVTDALPVSLPQIPCLSSFKNRQPYTLTFAELVEDYEHYIKEGLEKPVEIIRHYTGPGDQTVNPQNGFVK
QVT.ALPVSLPQI.CLSSFKN...YTLTFAELV.DY.HYIKEGLEKPVE.IRHYTGPGDQTVNPQN.FVK
RetrocopyQVTNALPVSLPQISCLSSFKNH*LYTLTFAELVKDY*HYIKEGLEKPVEVIRHYTGPGDQTVNPQNDFVK
ParentalNRVPEERVQ-ILASSSQSGDSESDSDSYSSRTSSQSKGNKSYLEGSSDP
NRVP.E.......S.S.S..S...S.S...................S.P
RetrocopyNRVPGESRY<LASSDSDSYSSRTSS*SKGNKSYLEGSSDPQLKDSESAP

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_3051 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
Otolemur garnettii ENSOGAG000000102802 retrocopies
retro_ogar_147, retro_ogar_155,
Otolemur garnettii ENSOGAG00000010503 1 retrocopy
retro_ogar_3051 ,


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