RetrogeneDB ID: retro_pper_25

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_6:19034599..19035829(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppb019035mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa025650mg
• Aliases: None
• Description: None

Sequence

>retro_pper_25
ATGCAGCTTGAAACGCCACGCGCCTCACGCGATGAAGAGAACGCGCCTCACGCGGCGATCTTTTCCAGCGACTTCTCTCC
ACTACCTCCTGTTACGACGGCGACTCCACCTAAATTTGTGTTCAGTGCTCTCCAACCTGAGAACAAACTGGAATCAGTGG
GAACGAAGCGGATTCGAACTACGGAGCCAGATCCCAACTCGTCTGGTGATATGGCGACTGATGTGGGCTTCGGCTCTCCT
CCCCCTGTAACCTTGAATTTTAGGGATTCGGTCTTGAAACAAGGTGGACATGGCTCTACCCGAACTGGGCTTGGGGGGAT
GGCGGATGATAAATTCACGATTGAGGATGATGACTTTATTGTCTCAGAAGGTGAAAAGGGACCGAGCATCAGATTTTCTG
AACAGGTTAAAGAGCGCCTCTACAGACCTTGGCGAACCTCAATCATCATCAAGCTGATGGGTAAGGCTCACACTTACAAT
TTTGTTCTTGCCAGGCTGCAGCATAGATGGGGTATGATTAAGGGCCCTTGGAAACTAATTGATTTAGAGAATGGATTCTT
TATTGTGAGATTTGTGCTTGAAGAGGATATGAAAGCTATACTGTGCGGTGGCCCTTGGGTTATTGCTGGCCAATACCTGG
TTATGCAGCGCTGGAAGCCTGGGTTTGATCCCCTTGTGGAGCAAGTGACAAGGATGACCGTTTGGGTCCGGATTATTGGT
CTCCACGTTGAATGGTTCCGCCCTGAAGCCATGCTACGCATTGGAGATTTACTGGGCACCACATTCAAGGTTGACTCCAA
TACTGTTGCCCAGGTCCGAGGGAAATATGCCCGAGTGTGTGTGGAGATTGATCTTACCCAACCCCTACAAGCCTTCGTGC
AGGTGGAGGATAACTGGTATGGTTTGGAATATGAAGGCATCCACTTGGTGTGCTTTGCCTGTGGGTGCTATGGCCACAAC
AGAAACGTTTGCCCCTCAGTGATTAAAAAACCGCATACTGAGAATGTTCAGAATACCACCCAACCCATGGATGAAGGGAC
ACCGAGCGCCTCTCCCCTCCCTGTCAATAAGGCCAGCACTGATGCCATGCCTCAGGATGACCCCCACGAGTCTTCAGGTA
CTTTAATAGGACCTTGGAGCCTGGTCCAGAATAGGAAGGGTAAAAAGCCCTTTAAGGCAAATGCTGACCTGAAGGCCAAG
ATGCTTGCCCCCAAGCTTAAAGGAGCCTAA

Alignment

ORF - retro_pper_25 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.45 %
• Parental protein coverage: 93.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNPGGIGVHKEDLVGMEEDKLTIEDDDFLVSEGTRGPCIRFCTKVKERLYRPWRNAIIIKLMGRTHTYSF
          ...GG.G.....L.GM..DK.TIEDDDF.VSEG..GP.IRF...VKERLYRPWR..IIIKLMG..HTY.F
Retrocopy LKQGGHGSTRTGLGGMADDKFTIEDDDFIVSEGEKGPSIRFSEQVKERLYRPWRTSIIIKLMGKAHTYNF

Parental  LLARLRQKWSLLKGAMSLIDLENNFYVVRFVLEDDMRYVFSREPWVIAGQSLVMQRWKLGFDH-NSTITR
          .LARL...W...KG...LIDLEN.F..VRFVLE.DM.......PWVIAGQ.LVMQRWK.GFD......TR
Retrocopy VLARLQHRWGMIKGPWKLIDLENGFFIVRFVLEEDMKAILCGGPWVIAGQYLVMQRWKPGFDPLVEQVTR

Parental  MAVWVRITGLHVEWFNPEAIKRIGDLIGVTYRIDTLTVAQARGKYSRICIELDLTKPLIANVQVEVKKY-
          M.VWVRI.GLHVEWF.PEA..RIGDL.G.T...D..TVAQ.RGKY.R.C.E.DLT.PL.A.VQVE...Y.
Retrocopy MTVWVRIIGLHVEWFRPEAMLRIGDLLGTTFKVDSNTVAQVRGKYARVCVEIDLTQPLQAFVQVEDNWYG

Parental  ---EGLHLVCFGCGIYGHNRNQCPSEIR
          ...EG.HLVCF.CG.YGHNRN.CPS.I.
Retrocopy LEYEGIHLVCFACGCYGHNRNVCPSVIK

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_25 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa025650mg	2 retrocopies	retro_pper_25 , retro_pper_69,