RetrogeneDB ID:

retro_cint_9

Retrocopy
location
Organism:Vase tunicate (Ciona intestinalis)
Coordinates:11:888348..890430(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:ENSCING00000021526
Aliases:None
Status:KNOWN_PROTEIN_CODING
Parental gene
information
Parental gene summary:
Parental gene symbol:None
Ensembl ID:ENSCING00000005707
Aliases:None
Description:None


Retrocopy-Parental alignment summary:






>retro_cint_9
GCAATGGATTCTGGAGATGGTTTAAAATCAAGTTCGAATATGGTGGTCCCTGATCTTCAAACTTTCTTGGAGATTGATCC
CTATATTGAAAACTTCACTGGAGACATTAAACGGAGGTATGAGATGTTTTCGAAGACCAAGGCCAGGATTGAAGCTGCAG
AAACAATGGAAAAATTTTCACAATCTTATAAAAATTTTGGTGTGAAAGGAAAACCTGATGGGTCAGTGCATTGTAAGGAA
TGGGTACCTGGGGCAAAGGCAGTTTATCTGCGTGGAGCTTTTAATAATTGGGAGCGATGGGGGTACAGTTACGAGAAAAA
AGAGTTTGGTAAATGGGAATTAGTGTTACCACCAAAAGATGATGGGAGTTCTATGATTGAACATCTTAGTGAACTCATGC
TTATTATACAAACGCATGATGATCAATATCTTGAAAGAATTTCCCCTTGGGCTACTTATGTCAAGCAGTTTGACAACCAT
GGGACATATAAGTGGATATTTTGGAATCCCCCTCAAAGCGAATTGTATCACTTTAAAAACCAACGCCCCAAAAAACCAAA
GAGTTTAAGAATTTATGAAGCTCATGTTGGAATTGCTTCCAGTGAACCCAAAGTTGCTTCCTACAAAAACTTTACAGATA
CAGTTTTACCAAGAATCAAAAAACTTGGCTATAACTGTGTCCAACTAATGGCTATAATGGAGCACGCTTATTATGCGAGC
TTTGGGTACCAGGTTACCAATTTCTTCGCTGCATCAAGTCGCTATGGTACACCTACAGAACTGCAAGAGCTGATCGATAC
AGCTCATGGCATGGGCCTCTATGTATTGTTGGATGTTGTACATAGCCATGCCTGCAAGAATGTTCTGGATGGACTGAATA
TGTTTAATGGAACGGACTCGTGTTTTTTCCATTCTGGTTCCAGGGGAGTCCACAGTCAGTGGGACAGCCGGCTCTTCAAC
TACTCAGAGTGGGAAGTGCTGAGGTTTCTCATTTCCAACCTTCGGTGGTATATGGAGGAATATAAGTTTGATGGTTTCCG
GTTTGACGGAGTTACTTCTATGATCTACCATGACCATGCAATCTCAAGGGGGTTTTCAGGAGATTACCATGAGTATTTTG
GCCTTCAGATGGACATGGAGTCATTGGTGTACCTGATTCTTGCCAATGATATGATAAAGACCTTCCTTCCCGATGCAATC
ACAATTGCAGAAGATGTTTCTGGGATGCCAGGAATGTGTAGGCCTGTCAGTGAAGGAGGGATTGGGTTCGATTACCGACT
TGCGATGGCAATCCCAGACCAGTGGATTAAGATCCTTAAAGAGGCGCGGGATGAGGATTGGGACATGGATCATATCTTCC
ATACACTCACTAACCGAAGGCATGGGGAACTTTGCATTGCATACGCTGAGAGTCATGACCAAGCGCTTGTTGGAGATAAA
AGCCTTGCTTTCTGGTTGATGGATAAAGAGATGTACACGCACATGTCAGAGTGCACCCACCTTACTCCTATCATTGATCG
TGGCATCTCACTTCATAAGATGATCCGTCTCATTACACATGGTCTTGGAGGAGAGGGATATCTCAATTTCATCGGGAATG
AGTTTGGTCATCCAGAGTGGCTGGACTTCCCAAGAGCCGGAAACAGTTCAAGTTACCATTATGCTCGCCGTCAGTTTCAC
CTTGTGGATGATAACCTGTTGAGGTATAAGTTCCTTTACAAGTTTGACTCTGCCATGCAGAATACAGAGGAAACATATGG
TTGGTTAGCAGCAAAACAAGCCTATGTTAGTAGAAAGCACAACGGTGACAAGGTTTTCGTATTCGAGCGAGCCGGGGTCT
TGTTTCTATTCAACTTCCATCATTCACAAAGTTTCACTGGTTATAGGGTTGGAGTCCAAAACCCAGGAAAATACAAGATT
GTTTTAGATTCTGATGACTCAGAGTATGGGGGACACAATAGAAATGATAAGTCTGTGAGGTTCTTCACGGAAGAGATGGC
TTTTGATGGTAGAGAGCATTCTATGCTCGTATATCTGCCTTGTAGATCTGCTATGATAATGGCAAAGGATGACACTGACT
AA

ORF - retro_cint_9 Open Reading Frame is conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 51.77 %
Parental protein coverage: 99.12 %
Number of stop codons detected: 0
Number of frameshifts detected 0


Retrocopy - Parental Gene Alignment:

ParentalVPAIENLFRSYPQLRVYEDDIRGRYGMFEKTKMSIEREEGLERFTQGHKEFGVMMTEDGGVRCMEWIPNA
VP.........P.......DI..RY.MF.KTK..IE..E..E.F.Q..K.FGV....DG.V.C.EW.P.A
RetrocopyVPDLQTFLEIDPYIENFTGDIKRRYEMFSKTKARIEAAETMEKFSQSYKNFGVKGKPDGSVHCKEWVPGA
ParentalKAVYLKGEFNNWNL--VQYREIGFGKWKLFIPPNRDGSCAIRHCSELKIVIETKDNQRIERISPWAKYVV
KAVYL.G.FNNW......Y....FGKW.L..PP..DGS..I.H.SEL...I.T.D.Q..ERISPWA.YV.
RetrocopyKAVYLRGAFNNWERWGYSYEKKEFGKWELVLPPKDDGSSMIEHLSELMLIIQTHDDQYLERISPWATYVK
ParentalQREANQGFKWRFWNPPSSQRVQITHTRPNKPDRLRIYEAHIGIASDRCEVSTYRHFTSNILPRIRDQGYN
Q.......KW.FWNPP.S........RP.KP..LRIYEAH.GIAS....V..Y..FT...LPRI...GYN
RetrocopyQFDNHGTYKWIFWNPPQSELYHFKNQRPKKPKSLRIYEAHVGIASSEPKVASYKNFTDTVLPRIKKLGYN
ParentalSLLLMAVIEHSYYPSWGYQVTNYFATSSRFGTPEEFKELVQTAHGMGIYVMVDVMHGEASKNVLDGLNMF
...LMA..EH.YY.S.GYQVTN.FA.SSR.GTP.E..EL..TAHGMG.YV..DV.H..A.KNVLDGLNMF
RetrocopyCVQLMAIMEHAYYASFGYQVTNFFAASSRYGTPTELQELIDTAHGMGLYVLLDVVHSHACKNVLDGLNMF
ParentalDGTEACFFEEGARGFNDEHDTRIFDYKKWETLRFLMSQLRYYVNEYHVDGFRFNGMSSMIFHDPSKHAVQ
.GT..CFF..G.RG.....D.R.F.Y..WE.LRFL.S.LR.Y..EY..DGFRF.G..SMI.HD...HA..
RetrocopyNGTDSCFFHSGSRGVHSQWDSRLFNYSEWEVLRFLISNLRWYMEEYKFDGFRFDGVTSMIYHD---HAIS
ParentalQSSFRDNQNSQYFGMQMKTDGLAYIMLMNDMLHRFYPNVITIAEDVPGMPALCRPVSEGGLGFDYRLCKD
.....D.....YFG.QM....L.Y..L.NDM...F.P..ITIAEDV.GMP..CRPVSEGG.GFDYRL...
RetrocopyRGFSGDYH--EYFGLQMDMESLVYLILANDMIKTFLPDAITIAEDVSGMPGMCRPVSEGGIGFDYRLAMA
ParentalAANVWAKLLNDTRDEDWNMHFIRQMIRENRVEEKRIMFTEHHEQNEVGRMTMSRKLMAD---SSMPESQQ
....W.K.L...RDEDW.M..I.......R..E..I...E.H.Q..VG.......LM.......M.E...
RetrocopyIPDQWIKILKEARDEDWDMDHIFHTLTNRRHGELCIAYAESHDQALVGDKSLAFWLMDKEMYTHMSECTH
ParentalLTPCLDRGLSLYKMTRLFTHAFAGQGFLNFICNEFGHPDWVELPSPSNNDSYQLARRQFHLADNQQLRYK
LTP..DRG.SL.KM.RL.TH...G.G.LNFI.NEFGHP.W...P...N..SY..ARRQFHL.D...LRYK
RetrocopyLTPIIDRGISLHKMIRLITHGLGGEGYLNFIGNEFGHPEWLDFPRAGNSSSYHYARRQFHLVDDNLLRYK
ParentalFLNRFDRAMNKTEERYGWLKSNQAIVTRAQESDKLFVFERAGLIFAFNFHPTKSYPDYRIPVERFGSYKI
FL..FD.AM..TEE.YGWL...QA.V.R....DK.FVFERAG..F.FNFH...S...YR..V...G.YKI
RetrocopyFLYKFDSAMQNTEETYGWLAAKQAYVSRKHNGDKVFVFERAGVLFLFNFHHSQSFTGYRVGVQNPGKYKI
ParentalVLDTDDRYFGGHSRNQPNVEFHAKTGHYDNFPNSMMIYLPSRSALVFS
VLD.DD...GGH.RN...V.F.......D....SM..YLP.RSA....
RetrocopyVLDSDDSEYGGHNRNDKSVRFFTEEMAFDGREHSMLVYLPCRSAMIMA

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






RNA-Seq - click to see more details

Ciona intestinalis was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Ciona intestinalis was not studied using ChIP-Seq data.

EST - click to see more details

No EST(s) were mapped for retro_cint_9 retrocopy.

TSS - click to see more details

Ciona intestinalis was not studied using FANTOM5 data.

Lab - click to see more details

retro_cint_9 was not experimentally validated.

Retrocopy orthology:
Ciona intestinalis 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
Ciona intestinalis ENSCING00000005707 1 retrocopy
retro_cint_9 ,


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