RetrogeneDB ID:

retro_mmul_74

Retrocopy
location
Organism:Rhesus macaque (Macaca mulatta)
Coordinates:5:155712202..155714083(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSMMUG00000003388
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:TKT
Ensembl ID:ENSMMUG00000014433
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_mmul_74
ATCATGGCCAACGACGCCAAGCCCGATGTGAAGACTGTGCAGGTGCTGCGGGACGCCGCCAACCGCCTGCGGATCCATTC
CATCAGGGCCACATGTGCCTCTGGTTCTGGCCACCTCACGTCGTGCTGCAGTGCAGCGGAGGTCGTGTCTGTCCTCTTCT
TCCACACGATGAAGTATAAACAGACAGACCCAGAACATCCGGACAATGACCGGTTCATCCTCTCCAAGGGACATGCTGCT
CCCATCCTCTATGCTGCTTGGGTGGAGGTGGGTGACATCGGTGAATCTGACTTGCTGAACCTGAGGAAACTTCACAGTGA
CTTGGAGGGACACCCTACTCCCCGACTGCCGTTTGTTGACATGGCAACAGGGTCCCTAGGGCAGGGATTAGGTGCTGCAT
GTGGAATGGCTTATACTGGCAAGTACCTTGACAAGGCCAGTTACCGGGTGTTCTGCCTTATGGGAGATGGCGAATCCTCA
GAAGGCTCTGTGTGGGAGGCTTTCGCTTTTGCCTCCCACTACAACTTGGACAATCTCGTGGCGGTCTTCGATGTGAACCG
CTTGGGACAAAGTGGCCCTGCACCCCTTGAACATGGCGCAGACATCTACCAGAATTGCTGTGAGGCCTTTGGATGGAATA
CTTACTTAGTGGATGGCCATGATGTGGAAGCCTTGTGCCAAGTATTTTGGCAAGCAAGTCAAGTGAAGAACAAACCTACT
GCTATAGTTGCCAAGACCTTCAAAGGTCGGGGTATTCCAAATATTGAGGATGCAGAAAATTGGCATGGAAAGCCAGTGCC
AAAAGAAAGAGCAGATGCAATTGTCAAATTAATTGAGAGTCAGATACAGACCAATGAGAATCCCAGACCAAAACCGCCTG
TGGAAGACTCACCTCAAATCATCATCACAGATATAAAAATGACCTCCCCACCTGCTTACAAAGTTGGTGACAAGATAGCT
ACTCAGAAAACATATGGTTTGGCTCTGGCTAAACTGGGCCGTGCAAATGAAAGAGTTATTGTTCTGAGTGGTGACACAAT
GAACTCCACCTTTTCTGAGATATTCAGGAAGGAACATCCTGAGCGTTTCATAGAGTGTGTTATTGCTGAGCAAAACATGG
TAAGTGTGGCACTAGGCTGTGCCACACGTGGTCGAACCATTGCTTTTGCTAGTGCTTTTGCTGCCTTTTTTACTAGAGCA
TTTGATCAGCTCCGAATGGGAGCCATTTCTCAAGCCAATATCAACCTTATTGGTTCCCACTGTGGGGTATCCTCTGGAGA
AGATGGACCCTCCCAAATGGCCCTGGAGGATCTAGCCATGTTCCGAAGCATTCCTAATTGCACTGTTTTCTATCCAAGTG
ATGCCATCTCAACAGAGCATGCTGTTTATCTAGCTGCCAATACCAAAGGAATGTGCTTCATTCGAACCAGCCAACCAGAA
ACTGCAGTTATTTATACCCCACAAGAAAATTTTCAGATTGGCCAGGCCAAGGTGGTCCGCCACAGTGTCAATGATAAAGT
CACAGTAATTGGAGCTGGAGTTACTCTCCATGAAGCCTTAGCAGCTGCTGACCATCTTTCTCAACAAGGTATTTCTGTCC
GTGTCATCGACCCATTTACCATTAAACCCCTGGATGCCGCCACCATCATCTCCAGTGCAAAAGCCACAGGCGGCCGAGTT
ATCACAGTGGAGGATCACTACAGGGAAGGTGGCATTGGAGAAGCTGTTTGTGCAGCTGTCTCCAGGGAGCCTGATATCCT
TGTTCATCAGCTGGCAGTGTCAGGAGTGCCTCAACATGGGAAAACTAGTGAATTGCTGGATATGTTTGGAATCAGTACCA
GACACATTATAGCAGCCGTAACACTTATTTTAATGAAGTAA

ORF - retro_mmul_74 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 67.9 %
Parental protein coverage: 99.04 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalKPDQQKLQALKDTANRLRISSIQATTAAGSGHPTSCCSAAEIMAVLFFHTMRYKSQDPRNPHNDRFVLSK
KPD....Q.L.D.ANRLRI.SI.AT.A.GSGH.TSCCSAAE...VLFFHTM.YK..DP..P.NDRF.LSK
RetrocopyKPDVKTVQVLRDAANRLRIHSIRATCASGSGHLTSCCSAAEVVSVLFFHTMKYKQTDPEHPDNDRFILSK
ParentalGHAAPILYAVWAEAGFLPEAELLNLRKISSDLDGHPVPKQAFTDVATGSLGQGLGAACGMAYTGKYFDEA
GHAAPILYA.W.E.G...E..LLNLRK..SDL.GHP.P...F.D.ATGSLGQGLGAACGMAYTGKY.D.A
RetrocopyGHAAPILYAAWVEVGDIGESDLLNLRKLHSDLEGHPTPRLPFVDMATGSLGQGLGAACGMAYTGKYLDKA
ParentalSYRVYCLLGDGELSEGSVWEAMAFASIYKLDNLVAILDINRLGQSDPAPLQHQMDIYQKRCEAFGWHAII
SYRV.CL.GDGE.SEGSVWEA.AFAS.Y.LDNLVA..D.NRLGQS.PAPL.H..DIYQ..CEAFGW....
RetrocopySYRVFCLMGDGESSEGSVWEAFAFASHYNLDNLVAVFDVNRLGQSGPAPLEHGADIYQNCCEAFGWNTYL
ParentalVDGHSVEELCKAFGQA---KHQPTAIIAKTFKGRGITGVEDKEK-HGKPLPTNMAEQIIQEIYSQIQSKK
VDGH.VE.LC..F.QA...K..PTAI.AKTFKGRGI...ED.E..HGKP.P...A..I...I.SQIQ...
RetrocopyVDGHDVEALCQVFWQASQVKNKPTAIVAKTFKGRGIPNIEDAENWHGKPVPKERADAIVKLIESQIQTNE
ParentalKILATPPQEDAPSVDIANIRMPSLPSYKVGDKIATRKAYGQALAKLGHASDRIIALDGDTKNSTFSEIFK
.....PP.ED.P...I..I.M.S.P.YKVGDKIAT.K.YG.ALAKLG.A..R.I.L.GDT.NSTFSEIF.
RetrocopyNPRPKPPVEDSPQIIITDIKMTSPPAYKVGDKIATQKTYGLALAKLGRANERVIVLSGDTMNSTFSEIFR
ParentalKEHPDRFIECYIAEQNMVSIAVGCATRNRTVPFCSTFAAFFTRAFDQIRMAAISESNINLCGSHCGVSIG
KEHP.RFIEC.IAEQNMVS.A.GCATR.RT..F.S.FAAFFTRAFDQ.RM.AIS..NINL.GSHCGVS.G
RetrocopyKEHPERFIECVIAEQNMVSVALGCATRGRTIAFASAFAAFFTRAFDQLRMGAISQANINLIGSHCGVSSG
ParentalEDGPSQMALEDLAMFRSVPTSTVFYPSDGVATEKAVELAANTKGICFIRTSRPENAIIYNNNEDFQVGQA
EDGPSQMALEDLAMFRS.P..TVFYPSD...TE.AV.LAANTKG.CFIRTS.PE.A.IY...E.FQ.GQA
RetrocopyEDGPSQMALEDLAMFRSIPNCTVFYPSDAISTEHAVYLAANTKGMCFIRTSQPETAVIYTPQENFQIGQA
ParentalKVVLKSKDDQVTVIGAGVTLHEALAAAELLKKEKINIRVLDPFTIKPLDRKLILDSARATKGRILTVEDH
KVV..S..D.VTVIGAGVTLHEALAAA..L....I..RV.DPFTIKPLD...I..SA.AT.GR..TVEDH
RetrocopyKVVRHSVNDKVTVIGAGVTLHEALAAADHLSQQGISVRVIDPFTIKPLDAATIISSAKATGGRVITVEDH
ParentalYYEGGIGEAVSSAVVGEPGITVTHLAVNRVPRSGKPAELLKMFGIDKDAIAQAVKGLITK
Y.EGGIGEAV..AV..EP.I.V..LAV..VP..GK..ELL.MFGI....I..AV.....K
RetrocopyYREGGIGEAVCAAVSREPDILVHQLAVSGVPQHGKTSELLDMFGISTRHIIAAVTLILMK

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






RNA-Seq - click to see more details

(Hint: click retrocopy or parental gene accession number on the plot's legend, to show / hide expression level values)

Expression validation based on RNA-Seq data:
Library Retrocopy expression Parental gene expression
SRP007412_brain 0 .00 RPM 78 .21 RPM
SRP007412_brain_prefrontal_cortex 0 .00 RPM 149 .62 RPM
SRP007412_cerebellum 0 .06 RPM 69 .09 RPM
SRP007412_heart 0 .06 RPM 30 .09 RPM
SRP007412_kidney 0 .00 RPM 173 .35 RPM
SRP007412_liver 0 .00 RPM 113 .37 RPM
SRP007412_testis 86 .96 RPM 5 .28 RPM

ChIP-Seq - click to see more details

Macaca mulatta was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_mmul_74 retrocopy.

TSS - click to see more details

Macaca mulatta was not studied using FANTOM5 data.

Lab - click to see more details

retro_mmul_74 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_mmul_74 has 6 orthologous retrocopies within eutheria group .

Species RetrogeneDB ID
Homo sapiens retro_hsap_47
Pan troglodytes retro_ptro_126
Mus musculus retro_mmus_220
Oryctolagus cuniculus retro_ocun_62
Bos taurus retro_btau_176
Equus caballus retro_ecab_6
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 ENSMMUG00000014433 1 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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