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 symbol: None
• Ensembl ID: PRUPE_ppa003336mg
• Aliases: None
• Description: None

Sequence

>retro_pper_42
ATGAGTTCAAGAAGAGGTGGTGGAAATTCCAAAGGGAAGGAAGTTCGTGAAGTCAATAGCCCGAAGGTTAAGCAGTTGAG
CCATGGTGTAGCAGACATTAGCCTGGACTCGGCACAAGACGATGGAGAGTGGGCGGTAATTTCCAGAAAATCCAAGAACA
GAGCTGGTAGCAGTGCTGCAAAACTAGTCCAATTGGGTCCTCAAAATTCTAATTATAAGGCGTGGGCACCGGCACATGAT
GCTCAGAAGCCAAGTATGCGAAATGGAACTGGTGGTTCACAAACTGCTAATTCTCAAAAACCAGCTGGAGGAAGAAATGC
AAGGCAGCAGCCTAACAGTACTGGTGGTTTTGGAAGCAACTTTGTGGCCCGGCAACATTTGATTCCCCCTCCCCTGGACC
ATGGATGGAATTGGCAATCTAGAGCTGGTAAAAAAGACAACAATGTGGCTGCTGCTCTCGCTGATGATAATGATGATGAC
AACTCTGATCATATGAGCGACACTGACGAATATGATGACGAGCTATTCAGTGATGAGTTTGACTCGGATTCAAGTGAAAA
GAGCCATGGCACTAGGAAGCAAAATAGATGGTTCAAGAAATTCTTTGAAAATTTGGATGGTTTAAGTGGAGGTGAGATTG
GTAATCCTGACAGACAGTGGCACTGTCCTGCATGCAAAGGTGGTCGTGGTGCCATTGACTGGTACCAAGGCGTGCAGCCC
CTGAAGAGACATGCCGAAACAAAAGGATCAAATAGGGTGAAGCTCCACAGAGAATTTGCAAAACTTTTGGATGTGGAGTT
GCAGATGAGAGGAGTTATGACTCAATCTGTGGCTGCGGGTGAAGTATTTGGTAAATGGGTAGGTTTAAAAGATGAGGAAA
AGGATTCCAAAATTGTCTGGCCTCCGATGGTTGTCATCACGAATACTAGACTTGAAAAGGATGAAAGTGGAAAGTGGATT
GGTATGGGAACCGAGGAGCTTGCTGAATACTTCGGATCTTATCCTTATTTGAAGACTCGACACTCGTATGGTCCGCAGGG
ACACTGTGGTATGAGCATTTTGATTTTTGAGGCCTCAGCAATAGGCCATTTTGAGGCTGGGCTGCTGCACAAGAATTTTG
CAGTGCAAGGATTAGGCAGGGATACTTGGGATTGTGGTCCTATCTTGTTTCGTGCAGGTGGTATTCGACAGCTTTACGGT
TACATGGCAGTGAAACGAGACTTGGATATATTCAACCAGCATACCGAGGAGAAATCTAAGCTGAAATTTGAGCTGAGATC
TTACCAAGAGGTGGTCCTACACCCAATGAGGCAAATGAGTGCGGACAGCCAACAGGTTATTTGGTTGAAGGACAAACTTC
CTATAGAACAGAGGCTTAGAAAAGATGCTGAACAGACTAATGAGATACTTCGTGACAAGCTCGAGAAGGTGCAGGAGGAA
AATCGCATTTTAAAACGGAGAATAAAAATGCAGCTTGAGGAGAACAAGGAAGAGATGGATCTGCAAGAAGAATTTTACAA
AGATATAATGTCTCGTACCCGAGATTGA

Alignment

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:

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

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_42 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa003336mg	1 retrocopy	retro_pper_42 ,