RetrogeneDB ID: retro_pper_1

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_4:8609033..8609495(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa023630mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa012933mg
• Aliases: None
• Description: None

Sequence

>retro_pper_1
ATGGATCCGAGCACAAAAAACCGCATTCAAAAAGAGCTTAAAGATATTAAAAAGGACCGTAACCCTTTGTACAAAGCAGT
AGATACAGTAAAAGATAACATTTATCATTGGCATGCCACAATTATGGGACCTCCTGAGAGCCCATATGAAGGAGGTTTTT
TTAAGCTTGATATTGAATTTCCCTCTAGTTATCCATTTCAGCCCCCAAAGGTGAAGTTTATTACCAAAGTGTACCACCCA
AATATCAATAGCAATGGAAGCATTTGCCTCAACGTCCTAAAAAACGAATGGACCCCTGCCCTTACCATCCCTAAGGTGTT
GATCTCAATCATGTCCTTGCTGACTATACCTAACCCTGACGACCCTCTCGACAAGGATGTCGCCCACGTCTACAAGACGG
ATCTACAGGCCTACAACGCCACTGCAAGGGCATGGACTCTCTGGCATGCGCAAAACAAATAA

Alignment

ORF - retro_pper_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.24 %
• Parental protein coverage: 95.95 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RILKELKDLQKDP-PTSCSAGPVAEDMFHWQATIMGPPDSPYAGGVFLVTIHFPPDYPFKPPKVAFRTKV
          RI.KELKD..KD..P.......V.....HW.ATIMGPP.SPY.GG.F...I.FP..YPF.PPKV.F.TKV
Retrocopy RIQKELKDIKKDRNPLYKAVDTVKDNIYHWHATIMGPPESPYEGGFFKLDIEFPSSYPFQPPKVKFITKV

Parental  FHPNINSNGSICLDILKEQWSPALTISKVLLSICSLLTDPNPDDPLVPEIAHMYKTDRAKYESTARSWTQ
          .HPNINSNGSICL..LK..W.PALTI.KVL.SI.SLLT.PNPDDPL....AH.YKTD...Y..TAR.WT.
Retrocopy YHPNINSNGSICLNVLKNEWTPALTIPKVLISIMSLLTIPNPDDPLDKDVAHVYKTDLQAYNATARAWTL

Parental  KYA
          ..A
Retrocopy WHA

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_1 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_ppa012933mg	1 retrocopy	retro_pper_1 ,