RetrogeneDB ID: retro_pper_9

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_7:20099100..20100066(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa026669mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa008670mg
• Aliases: None
• Description: None

Sequence

>retro_pper_9
ATGGACTTCGAGCAGTTTTATCGTTGTTACTCTGTCTCCTCAATTGGCAAGCCACATGCGGAAAACGGTGATAAAATTAT
AATGCCGCCGTCGGCTCTCCATCGCCTTGTTTGGGGTCCACAGGTGGCCTACCCTATGCTGTTTCAGCTCAACAATCCCA
ATTCTGAATCTGGACGAGTTACTCATTGCGGGGTCTTGGAATTTGTTGCCGATGAGGGCTTTGTATTTTTACCATCTTGG
ATGATGCACAACCTGCTTTTACAAGAGGGTAACCTTGTTCATGTCAAAAGCCAAAGCCTTGGGAAGGGAACATATGTCAA
ACTGCAACCTCACACCAAGGACTTTCTTGATATCTCAAACCCTAAAGCCGCTCTGGAGACGGCGTTGAGGAGCTACTCTT
GTTTAACCATTGGTGACACTATCATGCTTCCTTATAACAGTAAGAAGTATTACATCAACATAATTGAAACAAAGCCCTCC
TCTGCAATCTGTATAGTTGATACCGACTGCGAGGTTGATTTTGCCCCTCCTCTTGATTATGTGGAGCCTGAAAAGAAGCC
AGCACCATCCACTCTGCCAACGAAGAGACCACAAGAAGTTGAAGAAGATGAACAAGAGACACCTGAAAAGATAGCAAAGT
TCAGTCCCTTTACTGGTTCAGCCAGACGATTGGATGGAGAACCGGTCTTGACACAATCCGTTGCACCTGCAGTTCCCTCT
CCTCCGGAACTCAGGCAGCGCCAACTGGAGAGTGAAAATGGAACCAACAAAAAGGGTTCTAAGTCATCAGCTTCTGCTTC
ACTTCAACATTCTGGAAAGCTTGTGTTTGGTTCAAATGTGAACCGGCCTGTGAATGCAATCCCAAAAGTTGCCCCAAACA
ACCGCAGCAGGCAAGAGCCCCCTCACAAGGCAGAAGAGCCAAAGTTGCAAGCATTCACAGGGAAGAAGTATACCCTGAAA
GGGTGA

Alignment

ORF - retro_pper_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 72.46 %
• Parental protein coverage: 90.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FEQSYRCYPVSFIDKSHLEKGDKIIMPPSALDRLA-SLQIDYPMLFELNNPTVD--RVTHCGVLEFVADE
          FEQ.YRCY.VS.I.K.H.E.GDKIIMPPSAL.RL....Q..YPMLF.LNNP.....RVTHCGVLEFVADE
Retrocopy FEQFYRCYSVSSIGKPHAENGDKIIMPPSALHRLVWGPQVAYPMLFQLNNPNSESGRVTHCGVLEFVADE

Parental  GLIYLPYWMMENMLLQEGDICQVKNKSLVKGTYVKLQPHTKDFLDISNPKAILETTLRSYSCLTTGDTIM
          G...LP.WMM.N.LLQEG....VK..SL.KGTYVKLQPHTKDFLDISNPKA.LET.LRSYSCLT.GDTIM
Retrocopy GFVFLPSWMMHNLLLQEGNLVHVKSQSLGKGTYVKLQPHTKDFLDISNPKAALETALRSYSCLTIGDTIM

Parental  VPYNNKKYYINIVETKPSSAISIIETDCEVDFAPPLDYVEPE-KPAPITSSKKRLLEAEE---EPPEKIA
          .PYN.KKYYINI.ETKPSSAI.I..TDCEVDFAPPLDYVEPE.KPAP.T...KR..E.EE...E.PEKIA
Retrocopy LPYNSKKYYINIIETKPSSAICIVDTDCEVDFAPPLDYVEPEKKPAPSTLPTKRPQEVEEDEQETPEKIA

Parental  KFSPFTGSGKRLDGKP-LTQSIAQV--SSPILKQHQLKSENGT--KSSKSSTCAARQHSGKLVFGSNVNQ
          KFSPFTGS..RLDG.P.LTQS.A....S.P.L.Q.QL.SENGT..K.SKSS..A..QHSGKLVFGSNVN.
Retrocopy KFSPFTGSARRLDGEPVLTQSVAPAVPSPPELRQRQLESENGTNKKGSKSSASASLQHSGKLVFGSNVNR

Parental  PTNETPKVAPKN-SRQEPSQKAEDP
          P.N..PKVAP.N.SRQEP..KAE.P
Retrocopy PVNAIPKVAPNNRSRQEPPHKAEEP

Legend:

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

Expression

RNA-Seq

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

ChIP-Seq

Prunus persica was not studied using ChIP-Seq data.

EST

Prunus persica was not studied using EST data.

TSS

Prunus persica was not studied using FANTOM5 data.

Lab

retro_pper_9 was not experimentally validated.

Homology

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.

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Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza brachyantha	OB02G15500	1 retrocopy	retro_obra_16,
Prunus persica	PRUPE_ppa008670mg	1 retrocopy	retro_pper_9 ,