RetrogeneDB ID:

retro_trub_24

Retrocopy
location
Organism:Fugu rubripes (Takifugu rubripes)
Coordinates:scaffold_154:190213..192136(+)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSTRUG00000002112
Aliases:None
Status:KNOWN_PSEUDOGENE
Parental gene
information
Parental gene summary:
Parental gene symbol:TTC30A
Ensembl ID:ENSTRUG00000000444
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_trub_24
ATGAGCTCTATAAAGGATGTTGCGTCCATGTCTACAATAGTCAAACTAATTAAAGAAAGCCAGTATGTTGACGCAATTCA
AATTTTAACTGCACAATCTCAAAAACACCCAAAGTCCAGGGCAGCATTATCTTTGCTGGGTTACTGCTACTATCACATCA
ACAACTTTAGCGGTTCTGCTGAATGCTATAAGCAGCTCACTCAGCTGTATCCAGAAGTGGAGGACTACAAGGTGTATTAT
GCTCTGTCCCTGTATAAAGCTGGTGCTTATCCTGAGGCCACTATGGCTTTGTCTGCTCTTTACAGCAGCAGCCACACCAA
GATGCTCAGACTTCAAGCCTGCATCAAATATTGTGAGGAAAATTACTCTGCTGCTAAGTTGCTGCTAGAGAAGCTTCCCC
AAGATGACCCCAACTACATCTACAATATGGGCTGTTTGCTTTACCAGGAAGGCAAGTACGAAGAGGCCTGTGTGAAGTTC
ACCTCTGGTGTAAAATTGATGGGGTATATTCCAGCATTGTCTTACAACATTGCCTTATGTTACTATAGCCTAAAAATGTA
CCCTCAAGCCCTTAAACAAATTGAATACATTAAAAACCAGGGTTTCAAGGAACATCTACAACTGAGCGTTGGGATGATTT
CAGAGGATGACGATTTCCACAGCATGGGAAACACACCGGAACATCATCAGACAGTTCTCATCAAAGCCTTAAACCTTAAA
GCCGCCATTGAATATCAGCGGCAGAACCTTAAAATGGCTCAGGAGGCTTTGACACATCTGTCACCCCGATTCGAGCAAGA
GTTAGATCCAGTGACTCTCCACAACCAGGCTCTATTGAACATGGATACAAAACCATCAGACGGTTTCAAGAAGTTGGCCT
CCCTGTTGCAGCAGCCATTCTTTCCTCATGTCACCTTTGCAAATTTGCTGCTCCTCTACTGCAAATATGAGTATGTCTAC
CTAGCAGCTGATGTCCTGGCCGAGAATGCCCATCTTACCCACAAAATTTTCACACCATATATATACGAGTTACTGGATGC
CTTGTTGATGAGTCAAAAAACACCGGAGGAAACTTTTAGGAAATTTGATGACATGTGTGGCAAACTATCTGAGCAAGTAC
GCAAGCTGGCCAAAAAGGTACGAAGGCAGGCAAGAAATAAGGAAGCAAAGATGAAGACTGTGCAGGAATGCAAAGAAATT
TTGGAGAAGTACACTGTGGTCATGATGGCCCAGGCAAAGATCTACTGGAACCGAGAGAACTATCATATGGTACAGAAGAT
TTTCCACAAATCATGGGAGATCTGGTGTGAGGATGACACTTTGAAGCTGAACATTGCTCATGTGCTTTTCATGCAGAACA
AATATAAGAAGGCCATTAGCTTCTATGAGCCCATTGTCGTTAAACACAGTGATAATATTCTAAATGTAAGTGCTGTGGTC
CTGGCCAACCTCTGTTTTTCCTATGTAATGACCTGCAGCAATACAAAGGCCGAGGAGCTGATGAAGGAGATTGAAAAAAA
AGAGAAACAGATCTCCAAAGATGACCCCAACAAGATGGTCTTCCACCACTGCATTGTAAATTTGGTAATAGGGATGTTGT
ACTGCACAAAGGGAAACTATGAGTTTGGCATTTCGTGTGTTATAAAGAACCTGGAGCCTTATGACAAGAAGTTGGGGACT
GACACATGGTTTTACGCCAAGCAATGCTTTCTTTCTCTGCTGGAGAACATGGCCAAACATATGGTCATGCCAGTTGACTC
TGTGATAAAGGAGTGTATTCATTTTCTGGAGCAGTGCATGAGATTTGGTAAAACAGTTCCTGCCCACATCCAGCATCCTC
TGGAGGAGAGATGCATTCAAATCAGTAAAAATACTGTTGCTTATGAGGCTTGCAAACTCCTGACTCTTTTCTATGAAGTA
ACC

ORF - retro_trub_24 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 78.5 %
Parental protein coverage: 98.62 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalMTAIKEGEYTATIFKLIKESQYVDAIQILTVQLQKHPKSRAALSLLGYCYYHIQDFGASAECYEQLTQLH
M..IK......TI.KLIKESQYVDAIQILT.Q.QKHPKSRAALSLLGYCYYHI..F..SAECY.QLTQL.
RetrocopyMSSIKDVASMSTIVKLIKESQYVDAIQILTAQSQKHPKSRAALSLLGYCYYHINNFSGSAECYKQLTQLY
ParentalPEVEDYKVYYAQSLYKAGAYPEATKASFALDNTSSHTKMLKLQACIKYCEQDNSAAKSLLEQLPQDDPDY
PEVEDYKVYYA.SLYKAGAYPEAT.A..AL...SSHTKML.LQACIKYCE...SAAK.LLE.LPQDDP.Y
RetrocopyPEVEDYKVYYALSLYKAGAYPEATMALSAL-YSSSHTKMLRLQACIKYCEENYSAAKLLLEKLPQDDPNY
ParentalIYNMGCLLYQDGKYEDACKKFTSAMQVLGYVPALSYNIALCHYSLKMYPQALKHVEDIKNRGIKEHPELS
IYNMGCLLYQ.GKYE.AC.KFTS.....GY.PALSYNIALC.YSLKMYPQALK..E.IKN.G.KEH..LS
RetrocopyIYNMGCLLYQEGKYEEACVKFTSGVKLMGYIPALSYNIALCYYSLKMYPQALKQIEYIKNQGFKEHLQLS
ParentalVGMTSEGVDFHSVGNTLELQQTALIEALNLKAAIEYQLKNVKTAQEALTDMPPRSEQELDPVTLHNQALL
VGM.SE..DFHS.GNT.E..QT.LI.ALNLKAAIEYQ..N.K.AQEALT...PR.EQELDPVTLHNQALL
RetrocopyVGMISEDDDFHSMGNTPEHHQTVLIKALNLKAAIEYQRQNLKMAQEALTHLSPRFEQELDPVTLHNQALL
ParentalNMDTKPSEGFEKLAFLLQQPSFPPVTFANLLLLYCKYEYFDLAADVLAENAHLTYKFLTPYIYEFLDALL
NMDTKPS.GF.KLA.LLQQP.FP.VTFANLLLLYCKYEY..LAADVLAENAHLT.K..TPYIYE.LDALL
RetrocopyNMDTKPSDGFKKLASLLQQPFFPHVTFANLLLLYCKYEYVYLAADVLAENAHLTHKIFTPYIYELLDALL
ParentalMSQTTPEEAFRKLDDMCGKLTEQLRKLAKQVQMQTRDEEAQKKAVQEYNQMLEKYIVVLMAQAKIYWNRE
MSQ.TPEE.FRK.DDMCGKL.EQ.RKLAK.V..Q.R..EA..K.VQE....LEKY.VV.MAQAKIYWNRE
RetrocopyMSQKTPEETFRKFDDMCGKLSEQVRKLAKKVRRQARNKEAKMKTVQECKEILEKYTVVMMAQAKIYWNRE
ParentalNYQMVEKIFHKSLEVWCEDDTLRLNIAHVLFMQNKYKKAISFYEPIVKKHYDNILNVSAVVLANLCVSHI
NY.MV.KIFHKS.E.WCEDDTL.LNIAHVLFMQNKYKKAISFYEPIV.KH.DNILNVSAVVLANLC.S..
RetrocopyNYHMVQKIFHKSWEIWCEDDTLKLNIAHVLFMQNKYKKAISFYEPIVVKHSDNILNVSAVVLANLCFSYV
ParentalMTSNNAQAEELMKKIEKEEEQISNDDPNKKVFHHCIVNLVIGTLYCAKGNYEFGISRVIKSLEPYNNKLG
MT..N..AEELMK.I...E.QIS.DDPNK.VFHHCIVNLVIG.LYC.KGNYEFGIS.VIK.LEPY..KLG
RetrocopyMTCSNTKAEELMKEIXXXEKQISKDDPNKMVFHHCIVNLVIGMLYCTKGNYEFGISCVIKNLEPYDKKLG
ParentalTDTWFYAKRCLLSLLENMAKHMVEPVDSVIKECIQFLEQCEVFGKTVPALIEHPLEESRIHIGKNTVAYE
TDTWFYAK.C.LSLLENMAKHMV.PVDSVIKECI.FLEQC..FGKTVPA.I.HPLEE..I.I.KNTVAYE
RetrocopyTDTWFYAKQCFLSLLENMAKHMVMPVDSVIKECIHFLEQCMRFGKTVPAHIQHPLEERCIQISKNTVAYE
ParentalARKLLSLLYEVT
A.KLL.L.YEVT
RetrocopyACKLLTLFYEVT

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_24 retrocopy.

TSS - click to see more details

Takifugu rubripes was not studied using FANTOM5 data.

Lab - click to see more details

retro_trub_24 was not experimentally validated.

Retrocopy orthology:
Retrocopy retro_trub_24 has 0 orthologous retrocopies within teleost group .

Parental genes homology:
Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Takifugu rubripes ENSTRUG00000000444 1 retrocopy
retro_trub_24 ,


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