RetrogeneDB ID:

retro_ogar_679

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873525.1:12529121..12529895(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TAF9B
Ensembl ID:ENSOGAG00000011107
Aliases:None
Description:TAF9B RNA polymerase II, TATA box binding protein (TBP)-associated factor, 31kDa [Source:HGNC Symbol;Acc:17306]


Retrocopy-Parental alignment summary:






>retro_ogar_679
ATGGAGTCTGGCAAGATGGCTTCTCCCAGGAGCATGCCAAAAGATGCACAGATGATGGCACAAATCCTGAAGGATATGGG
GATTAGAGAATATGAGTCAAGAGTTATAAATCAGATGTTGGAGTTTGCCTTCCGATATGTGACCACAATTCTAGATGATG
CAAAAATTTATTCAAGCCATGCTAAGAAAGCTACTGTGGATGCAGATGATGTGCGATTGGCAATCCAATGTCGCGCTGAC
CAGTCTTTTACCTCTCCTCCCCCAAGAGATTTTTTATTAGATATTGCAAGGCAAAGAAACCAAACCCCTTTGCCATTGAT
CAAACCATATTCAGGTCCCAGATTGCCACCTGATAGATACTGCTTAACAGCTCCAAACTATAGGCTTAAGTCTTTACAGA
AAAAGGCATCTGCTTCTGCAGGAAGAATAACAGTTCCTCGGTTAAGTGTTGGTTCAGTTACTAGCAGACCAAGTACTCCC
ACACTAGGCACACCAACCCCACAAACCATGTCTGTTTCAACTAAGGTAGCGACTCCAATGTCTCTCACAGGGCAAAGGTT
TACGATACAGATGCCTACTTCATAATCCCCAGCTGTAAAAGCCTCAATTCCTGCAACTTCAGGAGTTCGGGATGTTCTGA
TTAATCCATCCTTAATTGGGTCCAAAAACATTCTTATTACTACTACTATGGTGTCATCACAAAATACTGCCAATGAATCC
TCAAGTGCATTGAAAAGAAAATGTGAAGAAGATGATGATGACTATGATAATTTG

ORF - retro_ogar_679 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 75.97 %
Parental protein coverage: 97.29 %
Number of stop codons detected: 1
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMESGKMAPPKNAPRDALVMAQILKDMGITEYEPRVINQMLEFAFRYVTTILDDAKIYSSHAKKPNVDADD
MESGKMA.P...P.DA..MAQILKDMGI.EYE.RVINQMLEFAFRYVTTILDDAKIYSSHAKK..VDADD
RetrocopyMESGKMASPRSMPKDAQMMAQILKDMGIREYESRVINQMLEFAFRYVTTILDDAKIYSSHAKKATVDADD
ParentalVRLAIQCRADQSFTSPPPRDFLLDIARQKNQTPLPLIKPYAGPRLPPDRYCLTAPNYRLKSLIKK-GPNQ
VRLAIQCRADQSFTSPPPRDFLLDIARQ.NQTPLPLIKPY.GPRLPPDRYCLTAPNYRLKSL.KK.....
RetrocopyVRLAIQCRADQSFTSPPPRDFLLDIARQRNQTPLPLIKPYSGPRLPPDRYCLTAPNYRLKSLQKKASASA
ParentalGRV-VPRLSVGAVSSRPTTPTIA--TPQTVSIPNKVATPVSVASQRFTMQIPPSQTAPVK-PVPATTAVQ
GR..VPRLSVG.V.SRP.TPT....TPQT.S...KVATP.S...QRFT.Q.P.S....VK...PAT..V.
RetrocopyGRITVPRLSVGSVTSRPSTPTLGTPTPQTMSVSTKVATPMSLTGQRFTIQMPTS*SPAVKASIPATSGVR
ParentalNVLINPSMIGPKNILITTNMVSSQNMANE-SNPLKRK-HEDDDNSDTL
.VLINPS.IG.KNILITT.MVSSQN.ANE.S..LKRK..EDDD..D.L
RetrocopyDVLINPSLIGSKNILITTTMVSSQNTANESSSALKRKCEEDDDDYDNL

Legend:
*Stop codon
>Forward frameshift by one nucleotide
<Reverse frameshift by one nucleotide






Otolemur garnettii was not studied using RNA-Seq expression data.
Otolemur garnettii was not studied using ChIP-Seq data.
Otolemur garnettii was not studied using EST data.
Otolemur garnettii was not studied using FANTOM5 data.
retro_ogar_679 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 28 parental genes, and 46 retrocopies.

Species Parental gene accession Retrocopies number
Ailuropoda melanoleuca ENSAMEG000000176131 retrocopy
Bos taurus ENSBTAG000000008951 retrocopy
Canis familiaris ENSCAFG000000172781 retrocopy
Callithrix jacchus ENSCJAG000000195201 retrocopy
Cavia porcellus ENSCPOG000000020982 retrocopies
Equus caballus ENSECAG000000101891 retrocopy
Erinaceus europaeus ENSEEUG000000109161 retrocopy
Felis catus ENSFCAG000000254932 retrocopies
Homo sapiens ENSG000001873251 retrocopy
Gorilla gorilla ENSGGOG000000024702 retrocopies
Macropus eugenii ENSMEUG000000096971 retrocopy
Myotis lucifugus ENSMLUG000000145811 retrocopy
Macaca mulatta ENSMMUG000000128751 retrocopy
Monodelphis domestica ENSMODG000000040771 retrocopy
Mustela putorius furoENSMPUG000000000841 retrocopy
Mus musculus ENSMUSG000000472421 retrocopy
Nomascus leucogenys ENSNLEG000000013785 retrocopies
Oryctolagus cuniculus ENSOCUG000000147171 retrocopy
Otolemur garnettii ENSOGAG00000011107 3 retrocopies
retro_ogar_1128, retro_ogar_3100, retro_ogar_679 ,
Pongo abelii ENSPPYG000000204974 retrocopies
Pan troglodytes ENSPTRG000000220534 retrocopies
Pteropus vampyrus ENSPVAG000000174081 retrocopy
Rattus norvegicus ENSRNOG000000024531 retrocopy
Sus scrofa ENSSSCG000000267142 retrocopies
Ictidomys tridecemlineatus ENSSTOG000000019823 retrocopies
Tarsius syrichta ENSTSYG000000079681 retrocopy
Tursiops truncatus ENSTTRG000000159641 retrocopy
Vicugna pacos ENSVPAG000000012101 retrocopy



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