RetrogeneDB ID: retro_pper_23

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_5:3657519..3658599(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa007677mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa008332mg
• Aliases: None
• Description: None

Sequence

>retro_pper_23
ATGGCGGAGCGGAGGTTCGGGATAGGCTATGCTTTGGCGCCGAAGAAGCAGCAGAGCTTCATCCAAGAGTCGCTGGTCGG
CCTCGCGAGATCGCGCGGCATCGATCTCGTACGGATCGACACTGAGCGCTCGCTGGCGGATCAGGGGCCGTTCGATTGTG
TGATGCACAAGTTGTACGGCAACGATTGGAAGCGGCAGCTGGAGGAGTTCAGGGTGAAGAACCCTAATGCGGTGATAATC
GACTCGCCGGAGGAGATCGAGCGGCTGCACAATCGGATTTCGATGCTGCAGGTGGTTTCGGAGCTGAAAATCGAGCACGA
GAGTGACACGTTTGGGATTCCGAAGCAGATTGTGATATACGACAAGGAAACGCTGTTTGATCGCCAGGCTTGGGAGGGTC
TGAAGTTCCCCGTAATCGCGAAGCCTCTGGTCGCCGACGGCAGCGCCAAGTCGCACAAAATGGCCCTGGTTTTCAACCAC
GACGGGCTCGACAACCTCAAACCCCCAATTGTGCTTCAGGAGTTTGTGAACCATGGCGGCGTCATCTTCAAGGTGTATGT
GGTTGGAGAACATGTGAAATGCGTGAAGCGTAAGTCACTCCCTGACGTTTCCGAAGAAGAGAAATTGGGAAGCTTGGATG
GCTTGTTGTCGTTCTCGCAGATATCCAATCTTGCAAACAATGAGAGAACTGATGACAAGTACTACAAGATGATGCAGTTG
GACGACACAGAGATGCCGCCACAGAGCTTTATCACTGATATTGCAAGAGGGTTGCGGCAAGGGCTGAGGTTGAACCTGTT
TAACTTTGATGTGATTCGGGACGCGAGGTTTGGTAACCGGTATTTGATAATTGACATTAATTACTTTCCTGGATATGCCA
AAATGCCGGGTTACGAGACTCTGTTGACTGATTTCTTTTGCGATATTATGCAAAAGAAAGAGAAAGATGGGGCGGAGAAC
ACTGGTTTGGATAGTTATGAAGTACTTAGCTGTGATGACGAAGTGAGGAAAATTGTAAGTAGTGATGGGGATGATGGGGG
TGATCTTAACGTAGAAGAGGAGAACTCAATTAAAGTTTGA

Alignment

ORF - retro_pper_23 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.46 %
• Parental protein coverage: 63.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGYALTSKKTKSFLQPKLEGLARNKGILFVAIDHNRPLSDQGPFDIVLHKLSGKEWRQILEDYRQTHPEV
          .GYAL..KK..SF.Q..L.GLAR..GI..V.ID..R.L.DQGPFD.V.HKL.G..W...LE..R...P..
Retrocopy IGYALAPKKQQSFIQESLVGLARSRGIDLVRIDTERSLADQGPFDCVMHKLYGNDWKRQLEEFRVKNPNA

Parental  TVLDPPDAIQHLHNRQSMLQAVADMNLSDSYGKVGVPRQLVVKRDASSIPDAVANSGLTLPIVAKPLVND
          ...D.P..I..LHNR.SMLQ.V............G.P.Q.V...D.....D..A..GL..P..AKPLV.D
Retrocopy VIIDSPEEIERLHNRISMLQVVSELKIEHESDTFGIPKQIVI-YDKETLFDRQAWEGLKFPVIAKPLVAD

Parental  GSAKSHELSLAFDRYSLQKLEPPLVLQEFVNHGGVLFKVYIVGEAIKVVRRFSLPDVSKRE-LSKTAGVY
          GSAKSH...L.F....L..L.PP.VLQEFVNHGGV.FKVY.VGE..K.V.R.SLPDVS..E.L....G..
Retrocopy GSAKSHKMALVFNHDGLDNLKPPIVLQEFVNHGGVIFKVYVVGEHVKCVKRKSLPDVSEEEKLGSLDGLL

Parental  RFPRVS
          .F...S
Retrocopy SFSQIS

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_23 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_ppa008332mg	1 retrocopy	retro_pper_23 ,