RetrogeneDB ID: retro_pper_13

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_5:12920950..12921535(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa011819mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa011825mg
• Aliases: None
• Description: None

Sequence

>retro_pper_13
ATGAAGACGATACTATCCTCGGACTCCATGGAGATCCCCGACGGGGTGACCATAAAAGTGAAGGCGAAGGTGATAGAGGT
GGAGGGTCCGCGAGGAAAGCTGACCCGAAACTTCAAGCACCTGAACCTGGACTTCGATCTGATCACGGACGAGGCCACCG
GGAAGAAGAAGCTGAAGATCGAAGCCTGGTTCGGGACCCGCAAGACCAGCGCCGCCATCAGAACGGCTATCAGCCACGTC
GAGAATCTGATCACCGGCGTCACCAAGGGCTACAGGTATAAGATGAGATTCGTCTACGCTCACTTTCCGATCAACGCTTC
GATCCCCAACTCCAACAACGCGATCGAGATCCGAAACTTCTTGGGCGAGAAGAAGGTGAGGAAGGTGGAGATGCTTCAGG
GCGTGAACATCTACCGGTCTGAGAAGGTGAAGGACGAGCTGGTTTTGGATGGAAACGACATCGAATTGGTGTCAAGGTCT
GCTGCTCTCATAAACCAGAAGTGCCATGTGAAGAACAAGGATATTAGGAAGTTTCTTGATGGGATTTATGTGAGTGAGAA
GAGGACGATAGCTGAAGAGGAGTGA

Alignment

ORF - retro_pper_13 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.08 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MKTILSSETMDIPDGVKIKVHAKIIEVEGPRGKLVRNFKHLNLDFQLIKDEETGKRKLKIDAWFGSRKTS
          MKTILSS..M.IPDGV.IKV.AK.IEVEGPRGKL.RNFKHLNLDF.LI.DE.TGK.KLKI.AWFG.RKTS
Retrocopy MKTILSSDSMEIPDGVTIKVKAKVIEVEGPRGKLTRNFKHLNLDFDLITDEATGKKKLKIEAWFGTRKTS

Parental  AAIRTALSHVENLITGVTKGYRYKMRFVYAHFPINASITNAAKSIEIRNFLGEKKVRKVDMLDGVSILRS
          AAIRTA.SHVENLITGVTKGYRYKMRFVYAHFPINASI.N....IEIRNFLGEKKVRKV.ML.GV.I.RS
Retrocopy AAIRTAISHVENLITGVTKGYRYKMRFVYAHFPINASIPNSNNAIEIRNFLGEKKVRKVEMLQGVNIYRS

Parental  EKVKDELILDGNDIELVSRSCALINQKCHVKNKDIRKFLDGIYVSEKGTILEEE
          EKVKDEL.LDGNDIELVSRS.ALINQKCHVKNKDIRKFLDGIYVSEK.TI.EEE
Retrocopy EKVKDELVLDGNDIELVSRSAALINQKCHVKNKDIRKFLDGIYVSEKRTIAEEE

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_13 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
Prunus persica	PRUPE_ppa011825mg	1 retrocopy	retro_pper_13 ,
Triticum aestivum	Traes_3B_6814689F5	1 retrocopy	retro_taes_81,