RetrogeneDB ID:

retro_meug_160

Retrocopy
location
Organism:Wallaby (Macropus eugenii)
Coordinates:GeneScaffold_4718:38474..39737(-)
Located in intron of:ENSMEUG00000006528
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:TKT
Ensembl ID:ENSMEUG00000005312
Aliases:None
Description:transketolase [Source:HGNC Symbol;Acc:11834]


Retrocopy-Parental alignment summary:






>retro_meug_160
AGTCACCCAGAGCTGCTGCAGCATCAAATGGAAGTGTACCAGAAATGATGTGAATCCTTTGGGTGGAACGTCATGGTCAT
GAATGGACACAATATGGAAGAACTCTGCAAGGTCTTTGACCAGGGCAAGGATAAGCCACTAGCTGTCATTGCAAAGACAT
ATAAGGGCAGAGGAATCTCAGGTGTGGAAGATAAGGAAGCTTGGCATGGGAAGCCCCTTCCCAAGACCATGGCAGAACAG
GTCATCGAGGAAATATACAGCCAAATCCAAAGCAAGAAGAAGATTCTAGCTACTCTCCCCAAGGAGGATGCCCCCACAGT
GAACATCACCAACATCTGGATGCCATCTCCCCCAAATTTCAAACTTGCAGACAAGCTAGGTACCTGTAAAGCCTATGACA
TGGCCCTGGTCAAACTTGAGCATGCCAGTGACCATGTGATTGCCTTGGATGAGGACACCAAGAATTCCACCTTCTCAGAA
CTTTTTAAGAAGGAGCATCCCAATTGCTTCATTGAGTGTTTCATTTCAGAACAGAACATGGTGAGCATCACTGTGGGATG
TGCCAAATGGGACAGGACCGTGCCTTTCTGCAGCACTTTTGCCACCTTCTTCACCATGGCCTTCAACCAGATCCATATGG
CAGTCATTTCTGAGAGTGACATCAAACTGTGTGGCTCGCCTATTGTGTCCATCAGTGAAGATGGTCCTTCTTAGATGGCA
CTTGAAGATCTTGCCATGTTCCAGAGCATCCCCAATGGAACAGTCTTTTACCTGAGTGATACTGTGGCTACTGAGAAAGT
GGTTGAGTTGGCTGCCAACACAAAGGGCATCTATTTCATAAGGACCAGCCTCCCAGACAATGCAGTCATTTACAACAACA
ATGAACACTTCCAGATTGGCCAGGCTAAGGTGGTTCTGAAGAGCAAAGATGACCAGGTGACTGTGATTGGAGTGACTCTC
CATGAAGCCTTGGCAGCTACAGAGCAGCTGAAGAAAGAAAAGATCAACATCTGGGTGCTTGATCCCTTTACAATTAAGCC
CCTGGAGAAGAAATTTGTCCTTGACAGTGCCTGGGCCACCCATGGCTGTATCCTCACCGTGAAAGACCATTACTATGAGA
GTGGCATAGGAGAGGCGGTAGCTGCAGCTGTCATGGGCAAACCCAGCATCACCATCACTTGCTTGGCAGTCACCAACGTT
CCCAGAAGCAGGAAGCCAGCAGAGCTGCTGAAGATGTTTGGCATCGACAAGGACGCCACTATT

ORF - retro_meug_160 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 74.53 %
Parental protein coverage: 73.26 %
Number of stop codons detected: 2
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalSDPGPLQHHMEVYLKRCDSFRWNIMVVDGHSVEELCKVFNQGKGKPLAVIAKTHKNRGISSVEDREAWHG
S.P..LQH.MEVY.K.C.SF.WN.MV..GH..EELCKVF.QGK.KPLAVIAKT.K.RGIS.VED.EAWHG
RetrocopySHPELLQHQMEVYQK*CESFGWNVMVMNGHNMEELCKVFDQGKDKPLAVIAKTYKGRGISGVEDKEAWHG
ParentalKPFPKNIAEQVIEEIYS-IQSKKKILATLPKEDAPTVNIANIWMPSPPNFKLGDKLATCKAYGMSLAKLG
KP.PK..AEQVIEEIYS.IQSKKKILATLPKEDAPTVNI.NIWMPSPPNFKL.DKL.TCKAY.M.L.KL.
RetrocopyKPLPKTMAEQVIEEIYSQIQSKKKILATLPKEDAPTVNITNIWMPSPPNFKLADKLGTCKAYDMALVKLE
ParentalHASDCVIALNGDTKNSTFSEFFKKEYPNHFIECFIAEQNMVSTAVGCATWNKTVPF-STFAAFFTRAFDQ
HASD.VIAL..DTKNSTFSE.FKKE.PN.FIECFI.EQNMVS..VGCA.W..TVPF.STFA.FFT.AF.Q
RetrocopyHASDHVIALDEDTKNSTFSELFKKEHPNCFIECFISEQNMVSITVGCAKWDRTVPFCSTFATFFTMAFNQ
ParentalIPLAVISESKINLCGSHCRVSIGEDGLSQMVLEDLAMFWSIPNGTGFYLSDAVAIEKANELAANTKDICF
I..AVISES.I.LCGS...VSI.EDG.S.M.LEDLAMF.SIPNGT.FYLSD.VA.EK..ELAANTK.I.F
RetrocopyIHMAVISESDIKLCGSPI-VSISEDGPS*MALEDLAMFQSIPNGTVFYLSDTVATEKVVELAANTKGIYF
ParentalIRNSCPDNAVIYNNNYNFQIGQAKVVLKSKDDQVTLIGSGVTLHEAFAPAEQLKKEKINIRVLHLFTIKP
IR.S.PDNAVIYNNN..FQIGQAKVVLKSKDDQVT.I..GVTLHEA.A..EQLKKEKINI.VL..FTIKP
RetrocopyIRTSLPDNAVIYNNNEHFQIGQAKVVLKSKDDQVTVI--GVTLHEALAATEQLKKEKINIWVLDPFTIKP
ParentalLDKKLVLDSVWATHGSILTMEDHYYEXXXXXXXXXATLGKPGITITCLMVGSIPKSRKLEELLMIFLINK
L.KK.VLDS.WATHG.ILT..DHYYE.........A..GKP.ITITCL.V...P.SRK..ELL..F.I.K
RetrocopyLEKKFVLDSAWATHGCILTVKDHYYESGIGEAVAAAVMGKPSITITCLAVTNVPRSRKPAELLKMFGIDK
ParentalDAII
DA.I
RetrocopyDATI

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






RNA-Seq - click to see more details

Macropus eugenii was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Macropus eugenii was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_meug_160 retrocopy.

TSS - click to see more details

Macropus eugenii was not studied using FANTOM5 data.

Lab - click to see more details

retro_meug_160 was not experimentally validated.

Retrocopy orthology:
Macropus eugenii 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 ENSMEUG00000005312 3 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 ENSOGAG000000169111 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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