RetrogeneDB ID: retro_pper_45

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:4990210..4991029(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppb017077mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa016139mg
• Aliases: None
• Description: None

Sequence

>retro_pper_45
ATGGGTGCACTCTGTGTCCATTCTACTAAGAAGGAATTGGACTTTCTTCAACTGAGGCAGCAACTCAAACAACGCATCAG
AAATAATCATGCCAAGGAGGTGGTGTCTGTTTGTGACGGCTCGATTGATAAGAAGAACAAGTTGCCGTGTGACAACTTCG
GATCCTTCTTTGGCCCCTCGCAGCATTCCATTGTACAAAGATTGATCGAGGAAAGCAAATCTTTAATGCCGGAGTTAAAG
GTTTTGGCATCTAGGGTTCTTAAAAATTCCCAAGACAAGGGTAAAAAGAGCCTCAAGATTCCTGCCTCGGCCACAACAAA
ATCTCGTTCGACGGATTTGAAACTCAAGTGTAAAAGCATCAAAGAGTCCCGGGATTACTCGTTTTTGTTCTCAGACAATG
CCGAAGTTCCAAAAGCTTCAAAAGAAGAGCCTGCACTTGGTAAAGATTCTGCCTCAAAGCCGAGTGAAGAAAGAAACCCG
GGTTCGGGTTTCGGGATACAAAGAAGTTCTGGGACTGGGAGAGATTTGAAGACTGTAAGAAAGCAAAATCTGGAAGAGAA
AGAGAGACTAGTTCATGGGAAGAGACATCCGATGCCAAAGAAGCATTCTTGTGTGATGAAGGAGAAAGAGAGAGGTCGTA
AGCGCTTTAGGGAGGAGGAGGAGGAGGAGGATGATGATTTTGTGATGGTGTCCACCTTTGATGACATTCTAAGAGAAGAG
AGGAGAAGTGAAAAAATTGCCAGAAAGGAGGATGAAAAAGAGCGGCTATTGATTCAGCAAGAAGAGAAGCAAGCTAGGTT
GAGAAAGCAAAGAAGCTGA

Alignment

ORF - retro_pper_45 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.89 %
• Parental protein coverage: 50.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ELDFLQLRQQLKQRIRNNHMKELGYAPESSVNK-NKLLSDDFGSFFGPSQSVIAQRVIEESKAFMPELRN
          ELDFLQLRQQLKQRIRNNH.KE.......S..K.NKL..D.FGSFFGPSQ..I.QR.IEESK..MPEL..
Retrocopy ELDFLQLRQQLKQRIRNNHAKEVVSVCDGSIDKKNKLPCDNFGSFFGPSQHSIVQRLIEESKSLMPELKV

Parental  LASK-FGNSHDKGKKKLKSPVLSTTNAKS---GLRCKNLKESRDYSFLLSDNAEIPSTSEGGEPRLVKNS
          LAS....NS.DKGKK.LK.P...TT...S....L.CK..KESRDYSFL.SDNAE.P..S...EP.L.K.S
Retrocopy LASRVLKNSQDKGKKSLKIPASATTKSRSTDLKLKCKSIKESRDYSFLFSDNAEVPKASK-EEPALGKDS

Parental  LSNSSNKRNPVS--AIHRASST--NLKSVKRQHLEEK
          .S..S..RNP.S...I.R.S.T...LK.V..Q.LEEK
Retrocopy ASKPSEERNPGSGFGIQRSSGTGRDLKTVRKQNLEEK

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_45 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_ppa016139mg	1 retrocopy	retro_pper_45 ,