RetrogeneDB - Retrocopy retro_pper

                        
>retro_pper_42
ATGAGTTCAAGAAGAGGTGGTGGAAATTCCAAAGGGAAGGAAGTTCGTGAAGTCAATAGCCCGAAGGTTAAGCAGTTGAG

CCATGGTGTAGCAGACATTAGCCTGGACTCGGCACAAGACGATGGAGAGTGGGCGGTAATTTCCAGAAAATCCAAGAACA

GAGCTGGTAGCAGTGCTGCAAAACTAGTCCAATTGGGTCCTCAAAATTCTAATTATAAGGCGTGGGCACCGGCACATGAT

GCTCAGAAGCCAAGTATGCGAAATGGAACTGGTGGTTCACAAACTGCTAATTCTCAAAAACCAGCTGGAGGAAGAAATGC

AAGGCAGCAGCCTAACAGTACTGGTGGTTTTGGAAGCAACTTTGTGGCCCGGCAACATTTGATTCCCCCTCCCCTGGACC

ATGGATGGAATTGGCAATCTAGAGCTGGTAAAAAAGACAACAATGTGGCTGCTGCTCTCGCTGATGATAATGATGATGAC

AACTCTGATCATATGAGCGACACTGACGAATATGATGACGAGCTATTCAGTGATGAGTTTGACTCGGATTCAAGTGAAAA

GAGCCATGGCACTAGGAAGCAAAATAGATGGTTCAAGAAATTCTTTGAAAATTTGGATGGTTTAAGTGGAGGTGAGATTG

GTAATCCTGACAGACAGTGGCACTGTCCTGCATGCAAAGGTGGTCGTGGTGCCATTGACTGGTACCAAGGCGTGCAGCCC

CTGAAGAGACATGCCGAAACAAAAGGATCAAATAGGGTGAAGCTCCACAGAGAATTTGCAAAACTTTTGGATGTGGAGTT

GCAGATGAGAGGAGTTATGACTCAATCTGTGGCTGCGGGTGAAGTATTTGGTAAATGGGTAGGTTTAAAAGATGAGGAAA

AGGATTCCAAAATTGTCTGGCCTCCGATGGTTGTCATCACGAATACTAGACTTGAAAAGGATGAAAGTGGAAAGTGGATT

GGTATGGGAACCGAGGAGCTTGCTGAATACTTCGGATCTTATCCTTATTTGAAGACTCGACACTCGTATGGTCCGCAGGG

ACACTGTGGTATGAGCATTTTGATTTTTGAGGCCTCAGCAATAGGCCATTTTGAGGCTGGGCTGCTGCACAAGAATTTTG

CAGTGCAAGGATTAGGCAGGGATACTTGGGATTGTGGTCCTATCTTGTTTCGTGCAGGTGGTATTCGACAGCTTTACGGT

TACATGGCAGTGAAACGAGACTTGGATATATTCAACCAGCATACCGAGGAGAAATCTAAGCTGAAATTTGAGCTGAGATC

TTACCAAGAGGTGGTCCTACACCCAATGAGGCAAATGAGTGCGGACAGCCAACAGGTTATTTGGTTGAAGGACAAACTTC

CTATAGAACAGAGGCTTAGAAAAGATGCTGAACAGACTAATGAGATACTTCGTGACAAGCTCGAGAAGGTGCAGGAGGAA

AATCGCATTTTAAAACGGAGAATAAAAATGCAGCTTGAGGAGAACAAGGAAGAGATGGATCTGCAAGAAGAATTTTACAA

AGATATAATGTCTCGTACCCGAGATTGA

ORF - retro_pper_42 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

Percent Identity:	66.76 %
Parental protein coverage:	61.3 %
Number of stop codons detected:	0
Number of frameshifts detected:	0

Retrocopy - Parental Gene Alignment:

                                ParentalKDGNVAAAKAND-DDDNSDAVGDS---DDELYSDEFDSDSSEKSHETRKSSRWFKKFFEILDSLTVDEIN
KD.NVAAA.A.D.DDDNSD...D....DDEL.SDEFDSDSSEKSH.TRK..RWFKKFFE.LD.L...EI.
RetrocopyKDNNVAAALADDNDDDNSDHMSDTDEYDDELFSDEFDSDSSEKSHGTRKQNRWFKKFFENLDGLSGGEIG
ParentalDPARQWHCPACQGGPGAIDWYRGLQPLMTHAKTKGSKRVMLHRELAELLDEELRRKG--TTVVPAGEAFG
.P.RQWHCPAC.GG.GAIDWY.G.QPL..HA.TKGS.RV.LHRE.A.LLD.EL...G..T..V.AGE.FG
RetrocopyNPDRQWHCPACKGGRGAIDWYQGVQPLKRHAETKGSNRVKLHREFAKLLDVELQMRGVMTQSVAAGEVFG
ParentalKWKGLKDEEKDHEIVWPPMVVIMNTRLEQDENEKWIGMGNQELLDYFSSYAAVRARHSYGPQGHRGMSIL
KW.GLKDEEKD..IVWPPMVVI.NTRLE.DE..KWIGMG..EL..YF.SY.....RHSYGPQGH.GMSIL
RetrocopyKWVGLKDEEKDSKIVWPPMVVITNTRLEKDESGKWIGMGTEELAEYFGSYPYLKTRHSYGPQGHCGMSIL
ParentalIFEASARGYLEAERLHKHFTEQGTDRDAWDRRRVLFHSGGKRQLYGYMAVKEDLDIFNQHSQGKSKLKFE
IFEASA.G..EA..LHK.F..QG..RD.WD....LF..GG.RQLYGYMAVK.DLDIFNQH...KSKLKFE
RetrocopyIFEASAIGHFEAGLLHKNFAVQGLGRDTWDCGPILFRAGGIRQLYGYMAVKRDLDIFNQHTEEKSKLKFE
ParentalMRSYQEMVVNQIRQMSEDNQQLNWFKNKVAKEQRHAKALEESLGIVSEKLRKTTEENRIVRQRTKMQHEE
.RSYQE.V....RQMS.D.QQ..W.K.K...EQR..K..E....I...KL.K..EENRI...R.KMQ.EE
RetrocopyLRSYQEVVLHPMRQMSADSQQVIWLKDKLPIEQRLRKDAEQTNEILRDKLEKVQEENRILKRRIKMQLEE
ParentalNKEEMYLQEQFFKD
NKEEM.LQE.F.KD
RetrocopyNKEEMDLQEEFYKD

                            

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

                        

RNA-Seq - click to see more details

Prunus persica was not studied using RNA-Seq expression data.

ChIP-Seq - click to see more details

Prunus persica was not studied using ChIP-Seq data.

EST - click to see more details

Prunus persica was not studied using EST data.

TSS - click to see more details

Prunus persica was not studied using FANTOM5 data.

Lab - click to see more details

retro_pper_42 was not experimentally validated.

Retrocopy orthology:

Prunus persica 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
Prunus persica	PRUPE_ppa003336mg	1 retrocopy	retro_pper_42 ,

	RetrogeneDB ID:	retro_pper_42
Retrocopy location	Organism:	*Peach (Prunus persica)*
	Coordinates:	scaffold_5:3216916..3218464(-)
	Located in intron of:	None
Retrocopy information	Ensembl ID:	PRUPE_ppa022647mg
	Aliases:	None
	Status:	KNOWN_PROTEIN_CODING
Parental gene information	Parental gene summary:
	Parental gene symbol:	None
	Ensembl ID:	PRUPE_ppa003336mg
	Aliases:	None
	Description:	None

Parental	KDGNVAAAKAND-DDDNSDAVGDS---DDELYSDEFDSDSSEKSHETRKSSRWFKKFFEILDSLTVDEIN
	KD.NVAAA.A.D.DDDNSD...D....DDEL.SDEFDSDSSEKSH.TRK..RWFKKFFE.LD.L...EI.
Retrocopy	KDNNVAAALADDNDDDNSDHMSDTDEYDDELFSDEFDSDSSEKSHGTRKQNRWFKKFFENLDGLSGGEIG

Parental	DPARQWHCPACQGGPGAIDWYRGLQPLMTHAKTKGSKRVMLHRELAELLDEELRRKG--TTVVPAGEAFG
	.P.RQWHCPAC.GG.GAIDWY.G.QPL..HA.TKGS.RV.LHRE.A.LLD.EL...G..T..V.AGE.FG
Retrocopy	NPDRQWHCPACKGGRGAIDWYQGVQPLKRHAETKGSNRVKLHREFAKLLDVELQMRGVMTQSVAAGEVFG

Parental	KWKGLKDEEKDHEIVWPPMVVIMNTRLEQDENEKWIGMGNQELLDYFSSYAAVRARHSYGPQGHRGMSIL
	KW.GLKDEEKD..IVWPPMVVI.NTRLE.DE..KWIGMG..EL..YF.SY.....RHSYGPQGH.GMSIL
Retrocopy	KWVGLKDEEKDSKIVWPPMVVITNTRLEKDESGKWIGMGTEELAEYFGSYPYLKTRHSYGPQGHCGMSIL

Parental	IFEASARGYLEAERLHKHFTEQGTDRDAWDRRRVLFHSGGKRQLYGYMAVKEDLDIFNQHSQGKSKLKFE
	IFEASA.G..EA..LHK.F..QG..RD.WD....LF..GG.RQLYGYMAVK.DLDIFNQH...KSKLKFE
Retrocopy	IFEASAIGHFEAGLLHKNFAVQGLGRDTWDCGPILFRAGGIRQLYGYMAVKRDLDIFNQHTEEKSKLKFE

Parental	MRSYQEMVVNQIRQMSEDNQQLNWFKNKVAKEQRHAKALEESLGIVSEKLRKTTEENRIVRQRTKMQHEE
	.RSYQE.V....RQMS.D.QQ..W.K.K...EQR..K..E....I...KL.K..EENRI...R.KMQ.EE
Retrocopy	LRSYQEVVLHPMRQMSADSQQVIWLKDKLPIEQRLRKDAEQTNEILRDKLEKVQEENRILKRRIKMQLEE

Parental	NKEEMYLQEQFFKD
	NKEEM.LQE.F.KD
Retrocopy	NKEEMDLQEEFYKD

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

RetrogeneDB ID:

retro_pper_42