RetrogeneDB ID:

retro_ogar_5

Retrocopy
location
Organism:Bushbaby (Otolemur garnettii)
Coordinates:GL873604.1:7374861..7376742(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSOGAG00000006953
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:TKT
Ensembl ID:ENSOGAG00000016911
Aliases:None
Description:transketolase [Source:HGNC Symbol;Acc:11834]


Retrocopy-Parental alignment summary:






>retro_ogar_5
GCCATGGCAGACGACGCCAAGCCCGATGCAAAGACTCTGCAGGCGCTCCGGGACGCTGCCAACCGCCTGCGGATCCACTC
TATTAGAGCCACGTGTGCCTCCAGCTCCGGCCACCCCACGTCGTGCTGCAGCGCTGCGGAGATCATGTCTGTCCTCTTCT
TCCACACCATGCGGTATAAGCGGACGGACCCGCAGCACCCGGACAACGACCGCTTCGTCCTCTCCAAGGGCCACGCTGCC
CCAGTCCTCTATGCCGCTTGGGCAGAGGTGGGCGACATCAGTGAATCCGACTTGCTGAACTTGAGGAAAATCCACTGCGA
CTTGGAGGGACACCCCACCCCGCGACTGCCATTTGTCGATGTGGCAACGGGATCCCTGGGGCAGGGATTAGGCGCAGCCT
GTGGAATGGCGTACACCGGCAAGTACTTCGACAAGGCTAGCTACCGCGTGTTCTGCCTCATGGGGGACGGCGAGTCCTCG
GAAGGCTCCGTCTGGGAGGCTTTGGCCTTTGCTTCCCACTACAGTTTGGACAATCTTGTGGCAGTCTTCGACGTGAACCG
CTTGGGACAGAGTGGCACCGCGCCCCTTGAGCACTGCACGGACATCTATCAGAATCGCTGTGAAGCCTTTGGCTGGAACA
CTTACATAGTGGATGGCCACGATGTGGAGGCTTTGTGCCAAGCCTTTTCGCAGGCAGCCCAAGTGAAGAACAAGCCCACT
GCTATAGTTGCCAAGACCTTCAAGGGTCGAGGTATTCCAAACATTGAAGATGCAGAAAATTGGCACGGAAAACCAGTGCC
GAAAGAAAGAGCAGAGGCAATTATCAAATTAATTCAAAGTCAGATACAGACCCAGGGGAATCCCATATCGAAACCCCCTG
TGGAAGATTCACCTCAAATCAGCATCACAAATATACAAATGACCTCTCCACCTGCTTACAAAATGGGCGACAAGATAGCT
ACTCAGAAAGCCTATGGTTTGGCTCTGGCTAAACTGGGCCATGAAAACAAAAGAGTTATTGTTCTGGATAGTGACACAAA
GAACCCCACCTTTTCTGAGATATTCAAGAAAGAACACCCTGAACGTTTCATAGAGTGTTTTATTCCTGAGCAAAACATGG
TGAGTGTGGCACTGGGCTGTGCTACACGTGGTCGAACCATTGTTTTTGCTAATACTTTCTCCGCCTTTTTCACTCGAGCA
TTTGATCAGATCCGAATGGGAGCCATCTCTCAAACCAATATTAACCTCATTGGTTCTCATTGTGGCGTATCCATAGGTGA
AGATGGGCCCTCCCAGATGGCCCTGGAGGATCTAGCCATGTTCCGAAGCATTCCCAATTGCACTGTTTTCTATCCCAGTG
ATGCCCTCTCCACAGAGCATGCTGTTTATCTAGCTGCTAACACCAAAGGAATGTGCTTCATACGGACCAGCCAACCAGAA
ACTGAAGTTATTTATACGGCACAAGAAAAGTTTGAGATTGGACAGGCCAAAGTGGTCCTTCACAGTGACAATGACAAGGT
CACAGTTATTGGAGCTGGAATTACTCTACATGAAGCCTTAGCAGCAGCTGACAATCTTTCTCAACAAGGTATTGCTATCC
GTGTCATCGACCCATTTACTATTAAACCTCTGGATGCTGCTACCATTATCTCCAGTGCAAAAGCCACAGGTGGTCGGGTT
ATCACAGTGGAGGATCACCACAAAGAAGGTGGCCTTGGAGAAGCTGTATGTGCAGCCGTCTCCAGGGAGCCTGACATCCT
TGTTCATCAGCTGGCAGTGTCAGGCCTGCCTCAAAGTGGGAAGCCTGGTGAATTGCTGGATATGTTTGGAATCAGTGCTG
GACACATTGTATCAGCTGTAAGAAATATTTTAATGAACTAA

ORF - retro_ogar_5 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 69.9 %
Parental protein coverage: 98.72 %
Number of stop codons detected: 0
Number of frameshifts detected: 0


Retrocopy - Parental Gene Alignment:

ParentalKPDQQKLQALKDTANRLRISSIQATTAAGSGHPTSCCSAAEIMAVLFFHTMRYKSQDPRNPHNDRFVLSK
KPD...LQAL.D.ANRLRI.SI.AT.A..SGHPTSCCSAAEIM.VLFFHTMRYK..DP..P.NDRFVLSK
RetrocopyKPDAKTLQALRDAANRLRIHSIRATCASSSGHPTSCCSAAEIMSVLFFHTMRYKRTDPQHPDNDRFVLSK
ParentalGHAAPILYAVWAEAGFLPEAELLNLRKISSDLDGHPVPKQAFTDVATGSLGQGLGAACGMAYTCKYFDKA
GHAAP.LYA.WAE.G...E..LLNLRKI..DL.GHP.P...F.DVATGSLGQGLGAACGMAYT.KYFDKA
RetrocopyGHAAPVLYAAWAEVGDISESDLLNLRKIHCDLEGHPTPRLPFVDVATGSLGQGLGAACGMAYTGKYFDKA
ParentalSYRVYCMLGDGELSEGSVWEAMAFAGIYKLDNLVAILDINRLGQSDPAPLQHQLDVYQKRCEAFGWHAII
SYRV.C..GDGE.SEGSVWEA.AFA..Y.LDNLVA..D.NRLGQS..APL.H..D.YQ.RCEAFGW...I
RetrocopySYRVFCLMGDGESSEGSVWEALAFASHYSLDNLVAVFDVNRLGQSGTAPLEHCTDIYQNRCEAFGWNTYI
ParentalVDGHSVEELCKAFGQA---KHQPTAIIAKTFKGRGITGVEDKESWHGKPLPKNMADQTIQEIYSQIQSKK
VDGH.VE.LC.AF.QA...K..PTAI.AKTFKGRGI...ED.E.WHGKP.PK..A...I..I.SQIQ...
RetrocopyVDGHDVEALCQAFSQAAQVKNKPTAIVAKTFKGRGIPNIEDAENWHGKPVPKERAEAIIKLIQSQIQTQG
ParentalKILATPPQEDAPSVDITNIRMPTPPSYKVGDKIATRKAYGQALAKLGHASDRIIALDGDTKNSTFSEIFK
.....PP.ED.P...ITNI.M..PP.YK.GDKIAT.KAYG.ALAKLGH...R.I.LD.DTKN.TFSEIFK
RetrocopyNPISKPPVEDSPQISITNIQMTSPPAYKMGDKIATQKAYGLALAKLGHENKRVIVLDSDTKNPTFSEIFK
ParentalKEHPDRFIECYIAEQNMVSIAVGCATRNRTVPFCSTFAAFFTRAFDQIRMAAISESNINLCGSHCGVSIG
KEHP.RFIEC.I.EQNMVS.A.GCATR.RT..F..TF.AFFTRAFDQIRM.AIS..NINL.GSHCGVSIG
RetrocopyKEHPERFIECFIPEQNMVSVALGCATRGRTIVFANTFSAFFTRAFDQIRMGAISQTNINLIGSHCGVSIG
ParentalEDGPSQMALEDLAMFRAVPMSTVFYPSDGVATEKAVELAANTKGICFIRTSRPENAIIYNNNEDFQVGQA
EDGPSQMALEDLAMFR..P..TVFYPSD...TE.AV.LAANTKG.CFIRTS.PE...IY...E.F..GQA
RetrocopyEDGPSQMALEDLAMFRSIPNCTVFYPSDALSTEHAVYLAANTKGMCFIRTSQPETEVIYTAQEKFEIGQA
ParentalKVVLKSKDDQVTVIGAGVTLHEALAAAELLKKEKINIRVLDPFTIKPLDRKLILDSARATKGRILTVEDH
KVVL.S..D.VTVIGAG.TLHEALAAA..L....I.IRV.DPFTIKPLD...I..SA.AT.GR..TVEDH
RetrocopyKVVLHSDNDKVTVIGAGITLHEALAAADNLSQQGIAIRVIDPFTIKPLDAATIISSAKATGGRVITVEDH
ParentalYNEGGIGEAVCTAVVGEPGITVTRLAVTQVPRSGKPAELLKMFGIDKDAIVQAVRGLV
..EGG.GEAVC.AV..EP.I.V..LAV...P.SGKP.ELL.MFGI....IV.AVR...
RetrocopyHKEGGLGEAVCAAVSREPDILVHQLAVSGLPQSGKPGELLDMFGISAGHIVSAVRNIL

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_5 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 19 parental genes, and 22 retrocopies.

Species Parental gene accession Retrocopies number
Bos taurus ENSBTAG000000037581 retrocopy
retro_btau_176,
Callithrix jacchus ENSCJAG000000072531 retrocopy
retro_cjac_2128,
Cavia porcellus ENSCPOG000000000721 retrocopy
retro_cpor_45,
Dipodomys ordii ENSDORG000000013921 retrocopy
retro_dord_329,
Homo sapiens ENSG000001639311 retrocopy
retro_hsap_47,
Macropus eugenii ENSMEUG000000053123 retrocopies
retro_meug_1397, retro_meug_160, retro_meug_796,
Myotis lucifugus ENSMLUG000000009431 retrocopy
retro_mluc_67,
Macaca mulatta ENSMMUG000000144331 retrocopy
retro_mmul_74,
Mus musculus ENSMUSG000000219571 retrocopy
retro_mmus_220,
Oryctolagus cuniculus ENSOCUG000000159042 retrocopies
retro_ocun_319, retro_ocun_62,
Otolemur garnettii ENSOGAG00000016911 1 retrocopy
retro_ogar_5 ,
Ochotona princeps ENSOPRG000000098911 retrocopy
retro_opri_10,
Pan troglodytes ENSPTRG000000150241 retrocopy
retro_ptro_126,
Pteropus vampyrus ENSPVAG000000162831 retrocopy
retro_pvam_352,
Rattus norvegicus ENSRNOG000000160641 retrocopy
retro_rnor_146,
Sarcophilus harrisii ENSSHAG000000173491 retrocopy
retro_shar_827,
Sus scrofa ENSSSCG000000214081 retrocopy
retro_sscr_996,
Tupaia belangeri ENSTBEG000000121141 retrocopy
retro_tbel_3510,
Takifugu rubripes ENSTRUG000000030091 retrocopy
retro_trub_23,


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