RetrogeneDB ID: retro_pper_38

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:1684770..1685130(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa012121m2g
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa017304mg
• Aliases: None
• Description: None

Sequence

>retro_pper_38
GTATGGGATCTTGGCGGACAAGAAAGACTAAGGACTTCATGGGCAACATATTACCGTGGAACTCATGCTATCATTGCAGT
AATAGACAGTACGGATAGGGCCAGGATTTCTATTATGAAAGATGAACTCTTCAGGTTGCTGGCACATGAGGATCTTCAAA
ATTCCGTTGTACTGGTTTTTGCAAATAAACAAGACCTCAAGGATGCCATGACCCCAGCCGAGATCACTGACACCCTTTCT
CTTCACAGCATTAAGAATCATGACTGGCACATCCAAGCCTGTTGTGCCCTCACAGGAGATGGCCTGTATGATGGTCTAGG
TTGGATTGCCCAGCGGGTTACAGGGAAAGCACCCAGTTGA

Alignment

ORF - retro_pper_38 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.43 %
• Parental protein coverage: 64.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VWDVGGQDKIRPLWRHYFQNTQGLIFVIDSNDRDRVVEARDEMHRMLNEDELREAVLLVFANKQDLPNAM
          VWD.GGQ...R..W..Y...T...I.VIDS.DR.R.....DE..R.L....L...V.LVFANKQDL..AM
Retrocopy VWDLGGQERLRTSWATYYRGTHAIIAVIDSTDRARISIMKDELFRLLAHEDLQNSVVLVFANKQDLKDAM

Parental  NAAEITDKLNLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNITSKA
          ..AEITD.L.LHS.....W.IQ..CA..G.GLY.GL.W.....T.KA
Retrocopy TPAEITDTLSLHSIKNHDWHIQACCALTGDGLYDGLGWIAQRVTGKA

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_38 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza longistaminata	KN540497.1_FG004	1 retrocopy	retro_olon_11,
Prunus persica	PRUPE_ppa017304mg	1 retrocopy	retro_pper_38 ,
Triticum aestivum	TRAES3BF099200050CFD_g	1 retrocopy	retro_taes_60,