RetrogeneDB ID:

retro_ttru_395

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:GeneScaffold_2119:216518..218678(-)
Located in intron of:ENSTTRG00000014382
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:HJURP
Ensembl ID:ENSTTRG00000004404
Aliases:None
Description:Holliday junction recognition protein [Source:HGNC Symbol;Acc:25444]


Retrocopy-Parental alignment summary:






>retro_ttru_395
TTTGGCTGTCCGAGCACCATGGACGGCGAGGTCCTGGGAGAGGATGCGCTGCTGCGGAAGCTCAGGGACAGCCGCCGCCG
CTTCCAGAGGCACATGCAGCAGCTGATAGAGAAGTACAACCAGCCCTTCGAGGACGCCCCGGTGGTGCAGATGTCCACGC
TGACCTACGAGACACCCCAGGGATTGCGAATTTGGGGAGGAAGATTAATAAAGGAAAGAAATACAGGACAAATCCAGGGC
TCCCCGGTGAAGACGGACAACAGGACAGATGGACCCATGCGAATCCCAGCTGGAGGTCACGAGCTTCCCTTGCCCTGCAC
ACAAGGTGAGGATTCAATAAGCAGTGATACTGATACAACTTTATTCCAAGAAGATGTGGTTGCTGGTAACTTGATGCCTG
CAGTGCCTTGGAGCCCATTGCAAAATGAGCTAAGGAGGAAGTACTTGACACAAATGGATACCCTGCTGCAGGATGAAGGG
TGTTTGGAGTGTGCCAGTTACGGAGAGGGAAAGGACACCCGTGTGACCCTGGTCCCTTCATTGGCCTCACCCGCCAGCCC
TGCCCGAGGATACTATGGTGGCATCTCTGAAGAGAGCCCCGGTGGCCCATTTCAGCCAACCTCATTGCCCAGAGAGGGTG
ATGCTTTGCACTCTTGCTCAGCAGGCCTGGCCCTGGTGCCGAGGGGTGATGGCATCTCCTTACAGGGAGGGACCGGTGGC
AGCAGCTTCTCAAGCAGCGCATGCTCTGAGGCTGAGGACGTCTGCAATGCAACACTCAGCGATCTGTATGTGGGCATGCT
ACACTCCATGAGCTGCCTGCTGGGTGTGAGGCCCTCCTGCGTCATCTCCACCAAGACGTTCATCCACCAGAACTGGAGCT
CCAAACGGAGGCCCAGGTGTAAGAGCAGAATGGACAGAACGAGCTGCAGAGGAGGCAGGCGCTCTCGGAGGAGCCCCCAG
GAGAGACGTCCACCCGGCTCCGAACCTGCGAAGGACGTGGCAGTGTTAAGAGATTGCGAGAACGTACTCGATGTTTCTGG
CCATAAGATGGGTTTAAAATTGGGAAGGGCTTTTTTTGAAGTAAACAAACCCCAGATCCACGCATTCGCTTCACATTGGA
AGGAGCTTCCGAGAACGCCTCAGAAGGATCATTCTTCATTGACTTACTTAGACTCCAATGCAGTGTATCATCTTGATCAG
GAAAATAGATTCATGACATTAAAGTGGTTGATTTCTCCTGTAAAAATAGGTTCTAGACCCAGAGTACCGCCGGGTGAGGG
AGGGAATCGTTATAGGGAGATGGAAATCAGATTTGACGAGCTTCATCAGGAATATTGCTCGAATCTTAGGAAGCAGCCCT
GCCTGACTTACCTTCCCGGCTCCTCGGCTGTGGATGTGTACAGAGGTGGTCCAGCAAGCCCTGGTAGCCCCCAGGGCGTA
GAAGCCCAAAGGCCGAGTAGCCCTCTCCGCAGAGCAAAAGCTAAGAGGTTGAGTGAGGCTTTTGAAAGCCTGGGCAAAGG
ATCTATCAGAGAGGGTAGCTGCCCACCAAAGAGTGATTCCTTCCCTTCGCTTTCAAAGACCACCTCCACATGTAGCCCGG
GCCGCTTGGAGCAGACCTCTGACCTTGCTTGTCAAGGAAATGATCTGGGAGGATTTAGGAAGTCAGTATCACTCAACAAA
GCCATTTCAGTACCCAGGGTACAACCTCCAGCCTGTGCCAGGGATCGTTACGATGACATTAAAGAAAAATTTGACAAGCT
TCATCAAAAGTATTGCCAAAAATCGCTTCAGCAGACGCAGGTGCCTTTATGTACCAGAGCATCTCCAGATAAAGCAAGTG
TGGGAGTTTGGTATCAAAAAGAAGACTTCTCAGGAAAATTCCATCCAGACTCTGGCTCCCAGGGCCCCCTGAACTTGTCA
TCGTCACCCCAGCAGAGCATTAAAAGTCCCCTCGGCTCAAACACAATTAGGGCCCCTCCATCTACAGGTTTTGCTCTCGA
TGCCAGCTGGGGCCATCAAGTCCCCACAAAACGACGCCGATTATCAGACCCTCAGGTGTGCAGACGGTGGGCTGGACCCT
GGGATTTCTCACCTGTGGGCAGAGCCATCCCGAGGCCTAGGGAAGAGGCTGGTTCTTTACAGGTCACCTGGGAAGAGAAG

ORF - retro_ttru_395 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 92.08 %
Parental protein coverage: 96.38 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalFGCLRAMEGEVLGEDALLQKLRDSRRRFQRRMQQLIEKYNQPFEDAPVVQMSTLTYETPQGLRIWGGRLI
FGC...M.GEVLGEDALL.KLRDSRRRFQR.MQQLIEKYNQPFEDAPVVQMSTLTYETPQGLRIWGGRLI
RetrocopyFGCPSTMDGEVLGEDALLRKLRDSRRRFQRHMQQLIEKYNQPFEDAPVVQMSTLTYETPQGLRIWGGRLI
ParentalKERNTGQIQGSPVKTDDRTDGSTRVPAGGHELPLPCTQVEDSVSSDTDTTLFQEDVVAGNLMPAVPWSPL
KERNTGQIQGSPVKTD.RTDG..R.PAGGHELPLPCTQ.EDS.SSDTDTTLFQEDVVAGNLMPAVPWSPL
RetrocopyKERNTGQIQGSPVKTDNRTDGPMRIPAGGHELPLPCTQGEDSISSDTDTTLFQEDVVAGNLMPAVPWSPL
ParentalKNELRRKYLTQVDILLQDEGCLEGASYGEGKDTRTTLVPSLASPARPARGYYGGNSEESPGGPFQPTSLP
.NELRRKYLTQ.D.LLQDEGCLE.ASYGEGKDTR.TLVPSLASPA.PARGYYGG.SEESPGGPFQPTSLP
RetrocopyQNELRRKYLTQMDTLLQDEGCLECASYGEGKDTRVTLVPSLASPASPARGYYGGISEESPGGPFQPTSLP
ParentalREGDALHSSSADLALVPRGDGISLQGGTGGSSFSSGPCSEAEDICNATLSDLYAGMLHSMSCLLGVRPSC
REGDALHS.SA.LALVPRGDGISLQGGTGGSSFSS..CSEAED.CNATLSDLY.GMLHSMSCLLGVRPSC
RetrocopyREGDALHSCSAGLALVPRGDGISLQGGTGGSSFSSSACSEAEDVCNATLSDLYVGMLHSMSCLLGVRPSC
ParentalVISTKTFIRQHWSSKRRHRCKSRMDRTSCRGGGRSRRSPRERRPPGSEPAKDVAVLRDRENVLDVSGHKT
VISTKTFI.Q.WSSKRR.RCKSRMDRTSCRGG.RSRRSP.ERRPPGSEPAKDVAVLRD.ENVLDVSGHK.
RetrocopyVISTKTFIHQNWSSKRRPRCKSRMDRTSCRGGRRSRRSPQERRPPGSEPAKDVAVLRDCENVLDVSGHKM
ParentalGLKLGRAFLEVNQPQIHAFASHWKELPRTPQKHHSSLTYLDSNAVYHLDQENRFMTLNWLISPVKIGSRP
GLKLGRAF.EVN.PQIHAFASHWKELPRTPQK.HSSLTYLDSNAVYHLDQENRFMTL.WLISPVKIGSRP
RetrocopyGLKLGRAFFEVNKPQIHAFASHWKELPRTPQKDHSSLTYLDSNAVYHLDQENRFMTLKWLISPVKIGSRP
ParentalRVPPGEGGNRYREIEIRFDKLHQEYCSNLRKQPCLTYLPSSSAVDVYRGGPASPGSPQGIEAHRPSSPLR
RVPPGEGGNRYRE.EIRFD.LHQEYCSNLRKQPCLTYLP.SSAVDVYRGGPASPGSPQG.EA.RPSSPLR
RetrocopyRVPPGEGGNRYREMEIRFDELHQEYCSNLRKQPCLTYLPGSSAVDVYRGGPASPGSPQGVEAQRPSSPLR
ParentalRAKAKRLSEAFESLGKGSIREGSCPPKSDSFPSLSKTNSTCSPGRSEQTSDLACQGNDLGGFRKSVSLNK
RAKAKRLSEAFESLGKGSIREGSCPPKSDSFPSLSKT.STCSPGR.EQTSDLACQGNDLGGFRKSVSLNK
RetrocopyRAKAKRLSEAFESLGKGSIREGSCPPKSDSFPSLSKTTSTCSPGRLEQTSDLACQGNDLGGFRKSVSLNK
ParentalAISVPRVQPPGCARDRYDDIKEKFDKLHQKYCQKSLQQTQVPSGTRASPDKASVGVRYPKEDFSGKFRPD
AISVPRVQPP.CARDRYDDIKEKFDKLHQKYCQKSLQQTQVP..TRASPDKASVGV.Y.KEDFSGKF.PD
RetrocopyAISVPRVQPPACARDRYDDIKEKFDKLHQKYCQKSLQQTQVPLCTRASPDKASVGVWYQKEDFSGKFHPD
ParentalSGSQGPPSLSSSPQQSIKSPLGSNTIRAPPSTGFALDASWGHQVPAKRRRLSDPQVCRRWTGPWDFSPVG
SGSQGP..LSSSPQQSIKSPLGSNTIRAPPSTGFALDASWGHQVP.KRRRLSDPQVCRRW.GPWDFSPVG
RetrocopySGSQGPLNLSSSPQQSIKSPLGSNTIRAPPSTGFALDASWGHQVPTKRRRLSDPQVCRRWAGPWDFSPVG
ParentalRAIPRPGEEAGSV-ATWEEK
RAIPRP.EEAGS...TWEEK
RetrocopyRAIPRPREEAGSLQVTWEEK

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






RNA-Seq - click to see more details

Tursiops truncatus was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Tursiops truncatus was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_ttru_395 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_395 was not experimentally validated.

Retrocopy orthology:
Tursiops truncatus 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 1 parental gene, and 1 retrocopy.

Species Parental gene accession Retrocopies number
Tursiops truncatus ENSTTRG00000004404 1 retrocopy
retro_ttru_395 ,


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