RetrogeneDB ID:

retro_trub_20

Retrocopy
location
Organism:Fugu rubripes (Takifugu rubripes)
Coordinates:scaffold_868:1258..3535(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTRUG00000002977
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSTRUG00000008276
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_trub_20
ATGTCGGGAAGGACAATGAGACGGCAAGTATCGTTGTTATTCTCCATCATTTGTCTCGGATTTGGGACCGGGCAGATCAC
CTACTCGATCCCAGAGGAAATGAACAAAGGTTCTGTGGTCGGAAACATCGCACAAGATTTGGGGATTGATGTTAAACGCC
TTAATTCAGGCAAAGCGCGCATCTACACAGGAGACAGTGTTCAGTATGTGGAGCTAAACAGAGGCAGAGGAGCCCTCCTT
GTTAAAGAGAAAATAGATCGCGAAGCTCTCTGCAGGCAGACGACGCCTTGTGCTTTGCATTTCCAAGTCACTTTAGAGAA
CCCATTAGAATTGTTTCCAGTTACGGTGGAAATTACAGATATCAATGACAACGCTCCCGTGTTCCAGAAGGAGGAGAAAA
GGTTTGAGATAAGCGAATCCGCGATCGTTGGCTCGAAGTTCATGCTGGAGAAAGCGATCGACCCTGATATCGGAATGAAT
GGGCTGCAGAGATACACGTTAAAACCCAGTGACAATTTTGTTCTGAAGCTACACACTGAGTCGGATGGCGATAAAAAGGT
AGAAATGATTTTGCAGAAGCCGCTGGATCGAGAGAAGCAGGAGCACATCTCTTTACTTCTGACAGCAGAGGACGGAGGTG
AACCGCAGATGACTGGAACAATGCGGATTTATGTTGCTGTGCTGGATGTAAATGACAATGCCCCTGTATTCACCAAACCT
GTTTATAAAGCAAATATTGCAGAAAACGCCGTCAGAGGAACGCTTATAACAAAGGTCAGTGCCTCTGATGCAGACAAAGG
CTCGCATGGCGAAGTCAGTTACGTCATAGCAAATAGCATGGACCCAGCCTCGAATTTATTTCACGTAAATAGCGAGGGAG
ATGTCATCTTGAACGGTCCGATAGACTATGAAAGAGAAAAGCATTACGATATAGATGTAGAAGCAATTGATTCAGGTGGG
CTCTCAGATTCCAGTAAGATAATAATTGATGTTATTGACGTAAATGACAATAAACCAACTATAAATATAATATCAGCCTC
TGGCTCAGTAACAGAGGATTCAGCACTCAAAACTGTAATAGCACTGATGAGTGTTAATGACCCTGATTCTGAAAACAATG
GAAAGGTGCAATGTATGATAAATGAAAATATCCCATTTGAAATTAAATTTACATCGAATAATGTTTATAGTTTATTAACA
GAGAGAGAGTTGGACAGAGAGAGAGAATCCGAGTATAACATCACAGTGAGCTGCTCTGATGAGGGAGTGCCCTCCCTCTC
CAGCAGCGTCACTCTCACCTTACAGATCTCTGATGTCAATGACAACCCTCCTGTCTTTGAGAGGAGCTCATATGAGGCCT
ACATTGTAGAAAACAACACACCAGGTCTCTCTGTATTCACAGTCAAAGCCAGAGACACTGACTGGAACCAGAACGCTCGT
GTTTCCTACATCCTGGAGGACTCCTCTGTTAACGGAGTTCCAGTCTCCTCATATGTGTCCGTTAGTGCTGATAGTGGAGT
CGTCCATGCAGTGCGCTCTTTTGACTACGAGCAGATCAAAGACTTTCACTTCCTGGTCAAAGCTCAGGATGGAGGTTCTC
CTCCACTCAGCAGCAACGTGAGCGTGAAAATCCTGATCCAGGACCAGAACGATAACCCCCCTCAGGTTCTGTACCCGGTC
CAGACTGGAGGCTCTATGGTGGCTGAAATGGTGCCTCGTTCAGCAGATGTGGGCTACCTGGTGACTAAAGTGGTGGCTGT
TGATGTGGACTCTGGACAGAATGCCTGGCTCTCCTATAAACTGCAGAAAGCCACAGACAGGGCCCTGTTTGAAGTGGGCC
TCCAGAATGGAGAGATCAGAACCATCCGCCAAGTGTCTGATAAAGATGCTGTCAAACAAAGACTGAGTGTCATCGTGGAG
GACAACGGGCAGCCCTCTCGTTCAGCTACAGTCATTGTGAACGTGGCGGTGGCCGACAGCTTCCCTGAAGTGCTGTCAGA
GTTCACTGACTTTGCTCACGACAAGGAGTACAATGACAACCTGACTTTTTACTTAGTCTTGGCTTTGGCTGTGGTCTCCT
TCCTCTTCATCACCTGTTTAGTGGTTATTATATCAGTCAAGATCTACAGGTGGAGACAGTCTCGCATCCTGTATCACTCC
AGTCTGCCTGTCATTCCATATTATCCACCACGTTACTCAGACACTTTGGGGACAGGGACTCTCCAACACGTGTACAACTA
CGAGGTGTGCAGGACCACTGACTCCAGAAAGAGTGAC

ORF - retro_trub_20 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 80.58 %
Parental protein coverage: 77.88 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalRTMRRQVFFFTMLFSLDSVLGQVSYSIPEEMPKGSVLGNIARDLGLDVKRLKSGKARIFTGDSAEYIELN
RTMRRQV........L....GQ..YSIPEEM.KGSV.GNIA.DLG.DVKRL.SGKARI.TGDS..Y.ELN
RetrocopyRTMRRQVSLLFSIICLGFGTGQITYSIPEEMNKGSVVGNIAQDLGIDVKRLNSGKARIYTGDSVQYVELN
ParentalRDRGVLLVKDRIDRETLCKQTTPCALHLQIILENPMELFRITVEITDINDNSPVFKKEEMRFRISESAVI
R.RG.LLVK..IDRE.LC.QTTPCALH.Q..LENP.ELF..TVEITDINDN.PVF.KEE.RF.ISESA..
RetrocopyRGRGALLVKEKIDREALCRQTTPCALHFQVTLENPLELFPVTVEITDINDNAPVFQKEEKRFEISESAIV
ParentalGAKFVLERAMDLDVGVNGLQSYSLKPTDNFQLKLQDQQDGSKKVEMILQKNLDRETQEHLSLILTAVDGG
G.KF.LE.A.D.D.G.NGLQ.Y.LKP.DNF.LKL....DG.KKVEMILQK.LDRE.QEH.SL.LTA.DGG
RetrocopyGSKFMLEKAIDPDIGMNGLQRYTLKPSDNFVLKLHTESDGDKKVEMILQKPLDREKQEHISLLLTAEDGG
ParentalDPQLSGTMRVEISVLDANDNAPVFVQEVYKITIMENAPKGTVFTTVSAVDADEGSYGKVSYFITNTFDDA
.PQ..GTMR....VLD.NDNAPVF...VYK..I.ENA..GT..T.VSA.DAD.GS.G.VSY.I.N..D.A
RetrocopyEPQMTGTMRIYVAVLDVNDNAPVFTKPVYKANIAENAVRGTLITKVSASDADKGSHGEVSYVIANSMDPA
ParentalHAVFQVNEDSGEIILIGNIDYENAKNYHINIRASDDGGLTDSCKVIVEVMDVNDNKPTINIMSKSNIISE
...F.VN...G..IL.G.IDYE..K.Y.I...A.D.GGL.DS.K.I..V.DVNDNKPTINI.S.S....E
RetrocopySNLFHVNSE-GDVILNGPIDYEREKHYDIDVEAIDSGGLSDSSKIIIDVIDVNDNKPTINIISASGSVTE
ParentalHSKLNTVVAMMNVQDPDSAENGRVHCFLNENMPLAIKSTSNNFYSLVTDSELDRERESEYNITVSCSDEG
.S.L.TV.A.M.V.DPDS..NG.V.C..NEN.P..IK.TSNN.YSL.T..ELDRERESEYNITVSCSDEG
RetrocopyDSALKTVIALMSVNDPDSENNGKVQCMINENIPFEIKFTSNNVYSLLTERELDRERESEYNITVSCSDEG
ParentalVPSLSSSVTLTLQISDVNDNPPVFERSSYEAYIVENNTPGLSIFTVKARDADWNQNARVSYILEDSSVNG
VPSLSSSVTLTLQISDVNDNPPVFERSSYEAYIVENNTPGLS.FTVKARD.DWNQNARVSYILEDSSVNG
RetrocopyVPSLSSSVTLTLQISDVNDNPPVFERSSYEAYIVENNTPGLSVFTVKARDTDWNQNARVSYILEDSSVNG
ParentalVPVSSYVSVSADSGVVHAVRSFDYEQIKDFHFLVKAQDGGSPPLSSNVSVKILIQDQNDNPPQVLYPVQT
VPVSSYVSVSADSGVVHAVRSFDYEQIKDFHFLVKAQDGGSPPLSSNVSVKILIQDQNDNPPQVLYPVQT
RetrocopyVPVSSYVSVSADSGVVHAVRSFDYEQIKDFHFLVKAQDGGSPPLSSNVSVKILIQDQNDNPPQVLYPVQT
ParentalGGSMVAEMVPRSADVGYLVTKVVAVDVDSGQNAWLSYKLQKATDRALFEVGLQNGEIRTIRQVTDKDAVK
GGSMVAEMVPRSADVGYLVTKVVAVDVDSGQNAWLSYKLQKATDRALFEVGLQNGEIRTIRQV.DKDAVK
RetrocopyGGSMVAEMVPRSADVGYLVTKVVAVDVDSGQNAWLSYKLQKATDRALFEVGLQNGEIRTIRQVSDKDAVK
ParentalQRLSVIVEDNGQPSRSATVIVNVAVADSFPEVLSEFTDFAHDKEYNDNLTFYLVLALAVVSFLFITCLVV
QRLSVIVEDNGQPSRSATVIVNVAVADSFPEVLSEFTDFAHDKEYNDNLTFYLVLALAVVSFLFITCLVV
RetrocopyQRLSVIVEDNGQPSRSATVIVNVAVADSFPEVLSEFTDFAHDKEYNDNLTFYLVLALAVVSFLFITCLVV
ParentalIISVKIYRWRQSRILYHSSLPVIPYYPPCYSDTLGTGTLQHVYNYEVCRTTDSRKSD
IISVKIYRWRQSRILYHSSLPVIPYYPP.YSDTLGTGTLQHVYNYEVCRTTDSRKSD
RetrocopyIISVKIYRWRQSRILYHSSLPVIPYYPPRYSDTLGTGTLQHVYNYEVCRTTDSRKSD

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






RNA-Seq - click to see more details

Takifugu rubripes was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Takifugu rubripes was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_trub_20 retrocopy.

TSS - click to see more details

Takifugu rubripes was not studied using FANTOM5 data.

Lab - click to see more details

retro_trub_20 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_trub_20 has 0 orthologous retrocopies within teleost group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 2 retrocopies.

Species Parental gene accession Retrocopies number
Takifugu rubripes ENSTRUG00000008276 2 retrocopies
retro_trub_20 , retro_trub_37,


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