RetrogeneDB - Retrocopy retro_ttru

						
>retro_ttru_1285
ACAAAAAATAATGTCCAAAGATATTTTGGCACTAACAGCGTGATCTATAGCAGGAAAGATGAGCAGTCTGTTCCAACTCG

TGAGATTTCCAAGGAGACAGAGAGCCAACACAGTGTAAAGGAGAATACGAAAAAAAAGACGTAAAAGATTCTTAAGGGAA

TGAAAGTTGAATTAAGCACAGTAAATGTACAAACAACAAAGCCACCCAACAGAAGCCAACTTAAAAGTTTGGAGGCTTCA

ATTGGCAGACTTCAGAAAGCTCCAGAAGATGACCCCCAAAGAGAAGTGAGTCCCTGAGTTGTGGCTGCTGCATCCGCGGT

TGCAGACTCTCTCCCTTTTGTTAAGCAGATGAACAAGTCAGAGCTGCTCAAGCAGCTCCAGCAGCACGAGGAAGACTCGA

GGGCACAGAAGGATGGAGAGAGACCTAAAATTAGTTTCACTAACATCATATCAGATACGAAAGTTGCCAGATCTGCCACA

GTGAGAGTTAGCGCAAGACCAGTACATCAGATTCAGTTTGATGACGGGACTGATGATTCTGTTGGCCAAGAGAAGGCTGC

TGATTTGAGAAAAAGTTTTAGGAAAAATATATTCAAGGGGAAGAGGCTTAATAATTTTGAGCTTAAGGCAGTTACTGAAG

AGGCACCTGAAACAGAGGCAGCACCTTCTCTTTGGGATGTAGAATTTTCTAAGCAGTTAGCGGCAGTCAAAGTACAACAC

TTTCAGAATGGTTTTGAAGAGATGATCCAGTTGACAAAAGAGGGGAAATTGTGGGAGTTCCCAACTAACAACGAAGCAGG

TTTTGATGATGATGGTTCAGAATTTCATGAATATATATTTCTGGATAAATACCTGGAGGATTTTCCAAAAACAAGGACCA

ATTCGCCACTTCATGGAGTTGATGACCTGTGGCCTTTCCAAAAACCCATATCTGAGTGTTAAGCAGAAGGTTGAACATAT

AGAGTGGTTTAGAAGTTATTTTAATGAAAAATAGGACATTCTAAAAGAAAGTGGCATACAGTTCAAT

ORF - retro_ttru_1285 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	85.26 %
Parental protein coverage:	100. %
Number of stop codons detected:	3
Number of frameshifts detected	1

Retrocopy - Parental Gene Alignment:

									ParentalTKNNIQRYFGTNSVIYSKKDEQPVPAREISKETESQHSVKENTKKDLVNILKGMKVELSSVNVQTTKPPN
		TKNN.QRYFGTNSVIYS.KDEQ.VP.REISKETESQHSVKENT......ILKGMKVELS.VNVQTTKPPN
RetrocopyTKNNVQRYFGTNSVIYSRKDEQSVPTREISKETESQHSVKENTXXXT*KILKGMKVELSTVNVQTTKPPN
ParentalRRQLKSLEASTVRLQSAPEDAPQKRSESLSPELVAAASAVADSLPFDKQMTKSDLLKQLQQHEEASRAQK
		R.QLKSLEAS..RLQ.APED.PQ......SP..VAAASAVADSLPF.KQM.KS.LLKQLQQHEE.SRAQK
RetrocopyRSQLKSLEASIGRLQKAPEDDPQRE---VSP*VVAAASAVADSLPFVKQMNKSELLKQLQQHEEDSRAQK
ParentalDGERPKISFTDIISDMKVARSATARVSTRPVHQIQFDEGTDDFVGQAKPADLRR--RKNIFKGKRLNIFE
		DGERPKISFT.IISD.KVARSAT.RVS.RPVHQIQFD.GTDD.VGQ.K.ADLR...RKNIFKGKRLN.FE
RetrocopyDGERPKISFTNIISDTKVARSATVRVSARPVHQIQFDDGTDDSVGQEKAADLRKSFRKNIFKGKRLNNFE
ParentalLKAVTEEAPETEAVPSLWDVEFAKQLAAVNEQPFQNGFEEMIQLTKEGKLWEFPINNEAGFDDDGSEFHE
		LKAVTEEAPETEA.PSLWDVEF.KQLAAV..Q.FQNGFEEMIQLTKEGKLWEFP.NNEAGFDDDGSEFHE
RetrocopyLKAVTEEAPETEAAPSLWDVEFSKQLAAVKVQHFQNGFEEMIQLTKEGKLWEFPTNNEAGFDDDGSEFHE
ParentalHIFLDKYLEDFP-KQGPIRHFMELVTCGLSKNPYLSVKQKVEHIEWFRNYFNEKRDILKESGIQFN
		.IFLDKYLEDFP.KQGPIRHFMEL.TCGLSKNPYLSVKQKVEHIEWFR.YFNEK.DILKESGIQFN
RetrocopyYIFLDKYLEDFP>KQGPIRHFMELMTCGLSKNPYLSVKQKVEHIEWFRSYFNEK*DILKESGIQFN

							

							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_1285 retrocopy.

TSS - click to see more details

Tursiops truncatus was not studied using FANTOM5 data.

Lab - click to see more details

retro_ttru_1285 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 11 parental genes, and 11 retrocopies.

Species	Parental gene accession	Retrocopies number
Choloepus hoffmanni	ENSCHOG00000008470	1 retrocopy	retro_chof_586,
Equus caballus	ENSECAG00000003600	1 retrocopy	retro_ecab_1028,
Nomascus leucogenys	ENSNLEG00000001164	1 retrocopy	retro_nleu_1999,
Oryctolagus cuniculus	ENSOCUG00000021467	1 retrocopy	retro_ocun_1747,
Otolemur garnettii	ENSOGAG00000024374	1 retrocopy	retro_ogar_914,
Ochotona princeps	ENSOPRG00000014606	1 retrocopy	retro_opri_1137,
Pongo abelii	ENSPPYG00000005306	1 retrocopy	retro_pabe_3785,
Sorex araneus	ENSSARG00000004428	1 retrocopy	retro_sara_594,
Sarcophilus harrisii	ENSSHAG00000007140	1 retrocopy	retro_shar_591,
Tarsius syrichta	ENSTSYG00000002170	1 retrocopy	retro_tsyr_238,
Tursiops truncatus	ENSTTRG00000012556	1 retrocopy	retro_ttru_1285 ,

	RetrogeneDB ID:	retro_ttru_1285
Retrocopy location	Organism:	*Dolphin (Tursiops truncatus)*
	Coordinates:	scaffold_109627:218026..219053(+)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	None
	Aliases:	None
	Status:	NOVEL
Parental gene information	Parental gene summary:
	Parental gene symbol:	MRPS31
	Ensembl ID:	ENSTTRG00000012556
	Aliases:	None
	Description:	mitochondrial ribosomal protein S31 [Source:HGNC Symbol;Acc:16632]

Parental	TKNNIQRYFGTNSVIYSKKDEQPVPAREISKETESQHSVKENTKKDLVNILKGMKVELSSVNVQTTKPPN
	TKNN.QRYFGTNSVIYS.KDEQ.VP.REISKETESQHSVKENT......ILKGMKVELS.VNVQTTKPPN
Retrocopy	TKNNVQRYFGTNSVIYSRKDEQSVPTREISKETESQHSVKENTXXXT*KILKGMKVELSTVNVQTTKPPN

Parental	RRQLKSLEASTVRLQSAPEDAPQKRSESLSPELVAAASAVADSLPFDKQMTKSDLLKQLQQHEEASRAQK
	R.QLKSLEAS..RLQ.APED.PQ......SP..VAAASAVADSLPF.KQM.KS.LLKQLQQHEE.SRAQK
Retrocopy	RSQLKSLEASIGRLQKAPEDDPQRE---VSP*VVAAASAVADSLPFVKQMNKSELLKQLQQHEEDSRAQK

Parental	DGERPKISFTDIISDMKVARSATARVSTRPVHQIQFDEGTDDFVGQAKPADLRR--RKNIFKGKRLNIFE
	DGERPKISFT.IISD.KVARSAT.RVS.RPVHQIQFD.GTDD.VGQ.K.ADLR...RKNIFKGKRLN.FE
Retrocopy	DGERPKISFTNIISDTKVARSATVRVSARPVHQIQFDDGTDDSVGQEKAADLRKSFRKNIFKGKRLNNFE

Parental	LKAVTEEAPETEAVPSLWDVEFAKQLAAVNEQPFQNGFEEMIQLTKEGKLWEFPINNEAGFDDDGSEFHE
	LKAVTEEAPETEA.PSLWDVEF.KQLAAV..Q.FQNGFEEMIQLTKEGKLWEFP.NNEAGFDDDGSEFHE
Retrocopy	LKAVTEEAPETEAAPSLWDVEFSKQLAAVKVQHFQNGFEEMIQLTKEGKLWEFPTNNEAGFDDDGSEFHE

Parental	HIFLDKYLEDFP-KQGPIRHFMELVTCGLSKNPYLSVKQKVEHIEWFRNYFNEKRDILKESGIQFN
	.IFLDKYLEDFP.KQGPIRHFMEL.TCGLSKNPYLSVKQKVEHIEWFR.YFNEK.DILKESGIQFN
Retrocopy	YIFLDKYLEDFP>KQGPIRHFMELMTCGLSKNPYLSVKQKVEHIEWFRSYFNEK*DILKESGIQFN

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

RetrogeneDB ID:

retro_ttru_1285