RetrogeneDB ID:

retro_ttru_1321

Retrocopy
location
Organism:Dolphin (Tursiops truncatus)
Coordinates:scaffold_110408:43447..44435(-)
Located in intron of:None
Retrocopy
information
Ensembl ID:None
Aliases:None
Status:NOVEL
Parental gene
information
Parental gene summary:
Parental gene symbol:ACCSL
Ensembl ID:ENSTTRG00000002727
Aliases:None
Description:1-aminocyclopropane-1-carboxylate synthase homolog (Arabidopsis)(non-functional)-like [Source:HGNC Symbol;Acc:34391]


Retrocopy-Parental alignment summary:






>retro_ttru_1321
CAATGGAGTGATTTTGAAGCTGCATTTGCCAGCCATGACCTATTCAACTGTGGGATTGACATCTCTGCCTTGTACCATTC
CAGCTTCTAGGGCTACAAGAACTGCCATGGAGACAAATACCATGAGGACAAGAACACTTTGGGTTTCATTAATCTTGGTA
CCAGTGAGAATAAGCTGTGCTTTGATCTGATTACTGAAATTTTGAATCACAGTGACATGAACTGCATTGAGGAGATCCTG
CTGCAATATCCTGATTAGAGAGGGCAACCATCCCTGGGAAGAAGTGGGCTCGTTCCTGACCTACTACTGCAAGACACCTG
CCCACCTGGATCCAGAAAACTTGGTTGTTCTAAATGGCTGCCACTCTGTCTTCTCCGTGCTGACCATGGTTCTGTGCGAT
TCAGGTGAGGCCTTTCTGAGCCCTCACCACCTTCTATGGTGGCTTCCTCTTCAGCTCCCATCGGTATGTGAAAGTTGAGC
TGATGCTTGTCCACCCAGACAGTGAGATCACCAGTGTGAACATCCATCCTTTCCAGCTCAAGTGTAGAAGGTGGAGCAAG
CCCCACTTGAGGCTATGCTTAAGGGCAGTAAGGTCAGAGACCTTGTGTTAATTAACCCTCAGAATCCTCTGGGTGACCTC
TACTCCTGGGACTCACTGAAGGAATACCTAGAACTTGCCAAGCGGTGCAACCTACGTGTCATTATAGATGAGATTTACAT
GCTATCTGTGTTGGATGAATACATGATATTTCACAGTGTTCTGGGCATGGAAAGTTTGCCTGGTTTCAACAGGGCCCATG
TGATCTGAAGCACCAGTAAGGATTTTATCATTTCTGGCTTCTACTTTGGCACTCTGTATACCCACAACAAGGAGGTGGGC
TCTGCTGTGAGCTCCTCTGGCTGCCTCTGCAGCGTTTCTGGCATCACCCAGCACAAACTGTGTTGGCTACTCCAGGACAG
AGAACAGATTGACAAAGTGTATCCACCT

ORF - retro_ttru_1321 Open Reading Frame is not conserved.
Retrocopy - Parental Gene Alignment summary:
Percent Identity: 64.97 %
Parental protein coverage: 65.6 %
Number of stop codons detected: 4
Number of frameshifts detected: 4


Retrocopy - Parental Gene Alignment:

ParentalQRSDFEDTLIGYDLYNRGIDISALYHSSFQDY-TYQGNKYHKDENTLGYINLGTSE-KICIDLLAERLTR
Q.SDFE......DL.N.GIDISALYHSSF..Y....G.KYH.D.NTLG.INLGTSE.K.C.DL..E.L..
RetrocopyQWSDFEAAFASHDLFNCGIDISALYHSSF*GYKNCHGDKYHEDKNTLGFINLGTSENKLCFDLITEILNH
ParentalTDMLYIDEDLLQYPDWRGQPFL-RKEVAR-FLTSDCKAPAHLDPENVVVLNGCSSVFSALAMVLCDPGEA
.DM..I.E.LLQYPD.RGQP.L..K..AR.FLT..CK.PAHLDPEN.VVLNGC.SVFS.L.MVLCD.GEA
RetrocopySDMNCIEEILLQYPD*RGQPSL<GKKWAR<FLTYYCKTPAHLDPENLVVLNGCHSVFSVLTMVLCDSGEA
ParentalFLVP-TPSYGGFIFSTHLYAKVELVPVHLESQVTEASAYPFQL-TVDKLERALLGAKIEGKKVRGLVLIN
FL.P.T..YGGF.FS.H.Y.KVEL..VH..S..T.....PFQL..V.K.E.A.L.A...G.KVR.LVLIN
RetrocopyFLSP>TTFYGGFLFSSHRYVKVELMLVHPDSEITSVNIHPFQL<QV*KVEQAPLEAMLKGSKVRDLVLIN
ParentalHQNPLGDIYSRDSVMEYLEFAKKYNLHVIIDEIYMLSVFDEAIPFHSVLSLESLPDPNKTHVIWGTSKGF
.QNPLGD.YS.DS..EYLE.AK..NL.VIIDEIYMLSV.DE...FHSVL..ESLP..N..HVI..TSK.F
RetrocopyPQNPLGDLYSWDSLKEYLELAKRCNLRVIIDEIYMLSVLDEYMIFHSVLGMESLPGFNRAHVI*STSKDF
ParentalGISGFRFGTLYTRNREVASAVSSFGYVHSISGVTQYKLCQLLQDREWVDNVYLP
.ISGF.FGTLYT.N.EV.SAVSS.G...S.SG.TQ.KLC.LLQDRE..D.VY.P
RetrocopyIISGFYFGTLYTHNKEVGSAVSSSGCLCSVSGITQHKLCWLLQDREQIDKVYPP

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_1321 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1321 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 13 parental genes, and 20 retrocopies.

Species Parental gene accession Retrocopies number
Callithrix jacchus ENSCJAG000000113841 retrocopy
retro_cjac_100,
Dipodomys ordii ENSDORG000000050581 retrocopy
retro_dord_340,
Equus caballus ENSECAG000000119081 retrocopy
retro_ecab_575,
Echinops telfairi ENSETEG000000090262 retrocopies
retro_etel_1006, retro_etel_204,
Homo sapiens ENSG000002051261 retrocopy
retro_hsap_3553,
Myotis lucifugus ENSMLUG000000051511 retrocopy
retro_mluc_1235,
Nomascus leucogenys ENSNLEG000000179661 retrocopy
retro_nleu_2326,
Ochotona princeps ENSOPRG000000020971 retrocopy
retro_opri_526,
Ochotona princeps ENSOPRG000000068057 retrocopies
retro_opri_1064, retro_opri_1151, retro_opri_251, retro_opri_252, retro_opri_398, retro_opri_399, retro_opri_808,
Pongo abelii ENSPPYG000000033401 retrocopy
retro_pabe_2934,
Pan troglodytes ENSPTRG000000286621 retrocopy
retro_ptro_2414,
Tupaia belangeri ENSTBEG000000166231 retrocopy
retro_tbel_3677,
Tursiops truncatus ENSTTRG00000002727 1 retrocopy
retro_ttru_1321 ,


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