RetrogeneDB ID: retro_pper_44

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_7:12581813..12582611(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa026235mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa005678mg
• Aliases: None
• Description: None

Sequence

>retro_pper_44
ATGATATACAGGGCGATTTTAGACACCTTCTATCTGACCGATGAGCAATTGCACAACTCGCCGTCGAGAAAGGACGGTAT
AGATGAGGCCACGGAGACCATGCTCAGAATCTATGGCTGTGAGTTAATCCAAGGAAGCGGAATTTTGCTCAAATTACCTC
AAGCAGTTATGGCCACTGGTCAGGTTCTGTTTCACCGATTCTATTGTAAGAAGTCGTTTGCAGGCTTCAACGTCAAGAAA
GTTGCTGCTAGCTGTTTGTGGCTTGCATCAAAACTGGAGGAGGAATGCCCTAAAAAAGCCAGGCAGGTTATCATTGTTTT
CCACAGGGTGGAATGTAGAAGGGAGAACAAGCTAGCAATTGAGCCTTTGGACTTGAATTCAAAGAAATATTCGGACATGA
AGACGGAGTTGAGTAGAGCAGAAAGACATATTTTAAAGGAGATGGGTTTCGTTTGTCATGTTGAGCATCCTCATAAGTTT
ATATCAAATTATCTTGCCACTCTGGAGACATCCACACCGCGGGAATTAACACAAGAAGCCTGGAATCTAGCAAATGACAG
TCTGCGTACGACATTGTGTGTGCGATTCAAGAGTGAAGTTGTTGCTTGTGGTGTAGTTTACGCTGCTGCTCGGAGGTTTC
GAGTTCCCCTTCCTGAGAATCCGCCATGGTGGAAGGCATTTGATGCTGAGAAATCAGGGATTGACCAAGTTTGTAGGGTG
CTGGCTCATCTGTACAGCCTTCCTAAAGCAAACTACATACCAGTCTGTAAGGATGGAGGAGATTCTTCTTTTACTAAC

Alignment

ORF - retro_pper_44 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.72 %
• Parental protein coverage: 58.26 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MIYTAI-DTFYLTDEQLQNSPSRKDGIDEATETTLRIYGCDLIQESGILLRLPQAVMATGQVLFHRFYCK
          MIY.AI.DTFYLTDEQL.NSPSRKDGIDEATET.LRIYGC.LIQ.SGILL.LPQAVMATGQVLFHRFYCK
Retrocopy MIYRAILDTFYLTDEQLHNSPSRKDGIDEATETMLRIYGCELIQGSGILLKLPQAVMATGQVLFHRFYCK

Parental  KSFARFNVKKVAASCLWLASKLEE-CPKKARQVIIVFHRMECRREN-LPIEPLDPYSKKYSDLKMELSKA
          KSFA.FNVKKVAASCLWLASKLEE.CPKKARQVIIVFHR.ECRREN.L.IEPLD..SKKYSD.K.ELS.A
Retrocopy KSFAGFNVKKVAASCLWLASKLEEECPKKARQVIIVFHRVECRRENKLAIEPLDLNSKKYSDMKTELSRA

Parental  ERHILKEMGFICHVEHPHKFISNYLATLET--PPELTQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAA
          ERHILKEMGF.CHVEHPHKFISNYLATLET..P.ELTQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAA
Retrocopy ERHILKEMGFVCHVEHPHKFISNYLATLETSTPRELTQEAWNLANDSLRTTLCVRFKSEVVACGVVYAAA

Parental  RRFQVPLPENPPWWKAFDAEKSGIDEVCRVLAHLYSLPKAKYVPVCKDGDSFTFSN
          RRF.VPLPENPPWWKAFDAEKSGID.VCRVLAHLYSLPKA.Y.PVCKDG....F.N
Retrocopy RRFRVPLPENPPWWKAFDAEKSGIDQVCRVLAHLYSLPKANYIPVCKDGGDSSFTN

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_44 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa005678mg	1 retrocopy	retro_pper_44 ,
Solanum lycopersicum	Solyc01g098350.2	1 retrocopy	retro_slyc_93,