RetrogeneDB ID:

retro_ogar_227

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873570.1:8403487..8405380(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000026282
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:DDX43
Ensembl ID:ENSOGAG00000013660
Aliases:None
Description:DEAD (Asp-Glu-Ala-Asp) box polypeptide 43 [Source:HGNC Symbol;Acc:18677]


Retrocopy-Parental alignment summary:






>retro_ogar_227
ACAGAGTGGAAGATGGGGGACTCTAAACCAAGAAATTTTAGGACCAGCTGGGATGACGGAGGTGGCGGAGGTGGCAGAGG
TGGCAGAGGCGGCAGAGGCAGCGGCAGGAGTGGCCCCTCTGACCAAATGGGGCCTAGGGCCCCAGGCTCACGTGAACCAC
CACTCTGCTTTAGATTGAGTAACAGCATGATTGGTGCGGTAATTGGTCGTAGTGGATCAAGAATAAATAATGTGCAACGT
TCGACAAACACTAAAATACAAATTATAGAGGGAGATTCCGAAGCAGAGGTAAAAATTTATGGCAGCAAGGACATGAAAGA
AAAGGCAAAAGCAGCTATAGAAACTTTGATTAAAAAACAAGAAAGCTATCAGTCAAAATATGATGTTGATAATGTAGCAT
CCCAACCCCCTGTTGGAAGAGACTTAACCAGAAATGAGAATGTTAGAGTACAGAAGCCAATGATAGATTGGGATCGAGTC
AAGGCGAAAGTTGCAGAATGGGAAAAAGCAAAATGGGCAGATTTACCACCAATTAAGAAAAACTTTTATATAGAATCGAA
AGCAACAACATCTATGTCGGAAATGCAGGTAGATAATTGGAGAAAGGAACATTTTAACATCACGTGTCAGGACTTGAAAG
ATGGTGAAAAGCGTCGCATCCCGAATCCTACGTGTAGATTCGAAGATGCTTTCCGACACTACTCTGGGCTCCTGGAAAGC
ATAACATCTTCAGGTTTCCAGAGCCCAACCCCAATTCAGTGTCAGGCGTGGCCCATTATTCTACAAGGATTAGATCTTAT
AGGAATCGCTCAAACGGGAACAGGCAAAACATTAGCCTATTTAATGCCTGGGTTTATACATCTTGACTCTCAACCAATAG
CAAGAGAACAAAGGAATGGACCTGGGATGCTGGTTCTTACACCAACTAGAGAATTAGCTCTTCAGGTGGAAGCTGAATGT
TCTAAGTATTTGTACAAAGATCTGAAAAGTGTTTGCATATATGGTGGTAAAGACAGAGACAAACAAATACAAGATGTTAA
GAAAGGTGTAGATATCATTATTGCAACTCCTGGTAGACTACACGATCTACAAATGAACAAGATGATCAACCTAAGAAGCA
TAACCTACTTAGTGTTGGATGAAGCAGATAAAATGCTGGATCTGGGATTTGAACCCCAGATAATGAAGATTTTATTAGAT
GTGCGCCCAGACCGGCAAACTGTAATGTTAAGTGCAACTTGGCCAGATACCATTCGTCGCCTTGCAAAGTCTTATTTGAA
AGATCCCATGATGGTTTATGTTGGTACTCTTGATCTGGTTGCTGTACATACAGTGACGCAAAATATAATTATTACCACTG
AAAGAAAAAAACGAGCACTTATCCAAGAATTCCTAGACAATATGTCACCCAACGACAAAGTCCTTGTGTTTGTCAACCGA
AAACTTGTTGCTGATGATTTATCAAGTGACTTTGGTATCCTAGGTATTCCTGTGCAGTCACTGCATGGTGACAGAGAACA
ATGTGATAGAGAACAAGCATTAGAAGACTTTAAAAGTGGAAGAGTGAAGATATTGATAGCAACTGATTTAGCATCTCGAG
GTCTCGACGTTAATGATATCACACACATATACAATTATGATTTTCCACGAAATGTTGAAGAATATGTACACAGAGTAGGA
CGTACTGGAAGAGCAGGAAAGACTGGCATATCAATTACCCTTATCACTCCAGAAAATTCGAAGATTGCCAGTGAATTGAT
TGAAATTCTGAAAAAAACAAATCAGAGCATCCCAGAAGATCTTGTAAAAATGGCTGAACAATACAAGTCACATCAACAAA
AAACGGAGGCAGAAAGACCAAGAAAATGTGGAAGAAAATCCAAGAAGTTTTAA

ORF - retro_ogar_227 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 66.12 %
Parental protein coverage: 93.22 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalRGGRGGDETDYSDFLGSRAAGL-EPPICFELKNHFVGVVIETGPGGSTIKDIQSTTSTKIQIIKGPQESL
RGGRG......SD..G.RA.G..EPP.CF.L.N...G.VI..G..GS.I...Q..T.TKIQII.G..E..
RetrocopyRGGRGSGRSGPSDQMGPRAPGSREPPLCFRLSNSMIGAVI--GRSGSRINNVQRSTNTKIQIIEGDSEAE
ParentalVKIFGNKAMQTKAKAVIDNFVKKQEEKYYSHRVDIVAFQPSVGRGRGTDNNVAAEDRPLIDWDQIREEGL
VKI.G.K.M..KAKA.I....KKQE.......VD.VA.QP.VGR......NV.....P.IDWD.......
RetrocopyVKIYGSKDMKEKAKAAIETLIKKQESYQSKYDVDNVASQPPVGRDLTRNENVRVQ-KPMIDWDRVKAKVA
ParentalKWEKKKWADLPPIEKNFYKESTTTSSMTQVEVDSWRKENFNIVCDDLKEGEKRPIPNPTCAFADAFQCYP
.WEK.KWADLPPI.KNFY.ES..T.SM....VD.WRKE.FNI.C.DLK.GEKR.IPNPTC.F.DAF..Y.
RetrocopyEWEKAKWADLPPIKKNFYIESKATTSMSEMQVDNWRKEHFNITCQDLKDGEKRRIPNPTCRFEDAFRHYS
ParentalEIMENIKKAGFQMPTPIQSQSWPIVLQGIDLIGVAQTGTGKTLSYLMPGFIHLDGQPKVGGKRNRPGMLV
...E.I...GFQ.PTPIQ.Q.WPI.LQG.DLIG.AQTGTGKTL.YLMPGFIHLD.QP.....RN.PGMLV
RetrocopyGLLESITSSGFQSPTPIQCQAWPIILQGLDLIGIAQTGTGKTLAYLMPGFIHLDSQPIAREQRNGPGMLV
ParentalLTPTRELAIQVEAECSKYSYKGLRSVCVYGGGDRDRQIEDLRKGVDVIIATPGRLNDLQMNNFVNLKSVT
LTPTRELA.QVEAECSKY.YK.L.SVC.YGG.DRD.QI.D..KGVD.IIATPGRL.DLQMN...NL.S.T
RetrocopyLTPTRELALQVEAECSKYLYKDLKSVCIYGGKDRDKQIQDVKKGVDIIIATPGRLHDLQMNKMINLRSIT
ParentalYLVLDEADKMLDMGFEPQIMKILLDVRPDRQTIMTSATWPYAVRRLAQSYLKEPMIVYVGTLDLVAVSTV
YLVLDEADKMLD.GFEPQIMKILLDVRPDRQT.M.SATWP...RRLA.SYLK.PM.VYVGTLDLVAV.TV
RetrocopyYLVLDEADKMLDLGFEPQIMKILLDVRPDRQTVMLSATWPDTIRRLAKSYLKDPMMVYVGTLDLVAVHTV
ParentalTQNVIVTTEEEKRAHIQTFLEHLSPNDKVIVFVCRKAVADHLSSDLILRHISVESLHGNREQRDREKALE
TQN.I.TTE..KRA.IQ.FL...SPNDKV.VFV.RK.VAD.LSSD.....I.V.SLHG.REQ.DRE.ALE
RetrocopyTQNIIITTERKKRALIQEFLDNMSPNDKVLVFVNRKLVADDLSSDFGILGIPVQSLHGDREQCDREQALE
ParentalDFKTGKVRILIATDLASRGLDVHDITHVYNYDFPRNIEEYVHRIGRTGRAGRTGVAITLVTRNDWRVATE
DFK.G.V.ILIATDLASRGLDV.DITH.YNYDFPRN.EEYVHR.GRTGRAG.TG..ITL.T......A.E
RetrocopyDFKSGRVKILIATDLASRGLDVNDITHIYNYDFPRNVEEYVHRVGRTGRAGKTGISITLITPENSKIASE
ParentalLIDILERANQSIPEELKAMSERYKAHQLKKQTE--RKMGRPQGKPKKF
LI.IL...NQSIPE.L..M.E.YK.HQ.K...E..RK.GR...K.KKF
RetrocopyLIEILKKTNQSIPEDLVKMAEQYKSHQQKTEAERPRKCGR---KSKKF

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_227 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 17 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000078511 retrocopy
retro_amel_31,
Callithrix jacchus ENSCJAG000000099662 retrocopies
retro_cjac_3639, retro_cjac_3640,
Equus caballus ENSECAG000000179711 retrocopy
retro_ecab_7,
Felis catus ENSFCAG000000316311 retrocopy
retro_fcat_583,
Homo sapiens ENSG000000800071 retrocopy
retro_hsap_76,
Gorilla gorilla ENSGGOG000000160921 retrocopy
retro_ggor_2889,
Microcebus murinus ENSMICG000000171451 retrocopy
retro_mmur_1603,
Monodelphis domestica ENSMODG000000185461 retrocopy
retro_mdom_14,
Mustela putorius furoENSMPUG000000043421 retrocopy
retro_mputfur_47,
Nomascus leucogenys ENSNLEG000000012091 retrocopy
retro_nleu_1094,
Oryctolagus cuniculus ENSOCUG000000063382 retrocopies
retro_ocun_1061, retro_ocun_227,
Otolemur garnettii ENSOGAG000000015391 retrocopy
retro_ogar_3395,
Otolemur garnettii ENSOGAG000000018442 retrocopies
retro_ogar_1492, retro_ogar_555,
Otolemur garnettii ENSOGAG00000013660 1 retrocopy
retro_ogar_227 ,
Procavia capensis ENSPCAG000000059621 retrocopy
retro_pcap_151,
Pongo abelii ENSPPYG000000167741 retrocopy
retro_pabe_39,
Pan troglodytes ENSPTRG000000183441 retrocopy
retro_ptro_35,


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