RetrogeneDB ID: retro_pper_8

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:35055873..35056302(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa027232mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa012114mg
• Aliases: None
• Description: None

Sequence

>retro_pper_8
ATGGATGCTAGCCGAGCTCCACCATATGGCCTAACCCAAGAGGAGTTTGCAGAGGTAGAGAGCCTCATCAAAACCTACCA
CAAATTCGAGCCGTCGCCAAACACATGCACGTCGCTAATAGCACAGAAAATCGACGCCCCGGCCAGCCACGTCTGGCCTC
TGGTTCGAAGCTTCGACAACCCGCAAAAATACAAGCACTTCATCAAAAGCTGCAACATGAAAGGTGACGGCGGCGTCGGG
AGCATAAGGGAGGTGACCGTGGTTTCGGGGCTTCCGGCCTCCACGAGCACCGAGAGGCTCGAGATTTTGGACGACGAGAA
GCACATAATTAGCTTTAGGGTTGTGGGAGGCGAACACAGGCTGAACAATTACAGGTCGGTTACTTCGGTTACTGAGTTCG
TTGATGGCAGAGACGGGGTGAGTGATCAG

Alignment

ORF - retro_pper_8 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.63 %
• Parental protein coverage: 64.48 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IQRHHRHEPRETQCTSALVRHIKAPAHLVWSLVRRFDQPQKYKPFVSRCTMKGDLGIGSVREVNVKSGLP
          I...H..EP....CTS.....I.APA..VW.LVR.FD.PQKYK.F...C.MKGD.G.GS.REV.V.SGLP
Retrocopy IKTYHKFEPSPNTCTSLIAQKIDAPASHVWPLVRSFDNPQKYKHFIKSCNMKGDGGVGSIREVTVVSGLP

Parental  ATTSTERLELLDDDEHILGIKIVGGDHRLRNYSSIITVHPEVIDGRLG
          A.TSTERLE.LDD..HI.....VGG.HRL.NY.S...V..E..DGR.G
Retrocopy ASTSTERLEILDDEKHIISFRVVGGEHRLNNYRSVTSV-TEFVDGRDG

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_8 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Amborella trichopoda	AMTR_s00107p00103680	1 retrocopy	retro_atri_5,
Oryza brachyantha	OB05G16630	1 retrocopy	retro_obra_18,
Oryza barthii	OBART05G07210	1 retrocopy	retro_obar_15,
Prunus persica	PRUPE_ppa012114mg	1 retrocopy	retro_pper_8 ,