RetrogeneDB ID: retro_pper_52

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_3:20073518..20074781(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa020023mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa009746mg
• Aliases: None
• Description: None

Sequence

>retro_pper_52
ATGACGAGAAGAGACAAACCTCCCCCGCCTTCAAGCTCCCGAAGGCGCAGCGAAAGAAGAGCTTGTAGAAGAAGACATGT
TGCTGATGGTGGCGCTGACAGCTCTGTCCAACTGCCTCGGCCATCGGCACCGAAGACAATTTACAGTTACTTAGAAGGGT
TGTACGAGAGAAGAGGATCCGACCGAGAGGAGGCACTCGCTTCAATAATTGGGGTGTTAAATAGCAGATTAGAGCATGAC
TTTCTAGAAAATAATTTCGCAAGTTTTCTATACAGGGGCTTGAATTCCTTCAAAAAGGGTTCCTCCAAGGAGAAGCAGCT
ATCACTTCATCTCGTAGGGTTGCTTGCCATGATCGTTGGCTATGAGGATAAAGTGTCTGAAGTGTACAGGGAGTTGCTTC
CGGTTCTTTCTAAAGCTCCGAAATCTGGAACCACGGCAGTGAAGGTATTAGACTGTTTGGGCATTGTGGCTTTTTTTGGT
GCAACCAACTCAGAGGATATTCAAAATGCAATGCAAATTATATGGAAGTTCATTCACGCTGATCAATCTGATGCAAATGA
AGAAAAGCATTCGGCGGCGGTCCTAGTTGCTGCAATAAATGCTTGGTTGTTTCTACTTACGAGCGTGGAAGGATGGAGAC
TCAGACACAACAACTGGAATGGAGCCATTGATTACTTCTCAACCCTGTTGTTAAAGCATGATGATAAATTAGTCCGTGTG
GCTGCTAGTGAAGCACTAGCTTTGATTTTCGAAACCGGTAGTTTGGAAAAGTTCTGGGGAGAAGGAAAGGAACGTAGCTA
TTCACATATGCAACAATTACTGAGGGAGAGTATCGTTGCAAACGACATCCGCGAAGTTGTGAAATATTTTGGGAATTTTC
AATGCCCGGGAACATCATTGACAGTCAATGGAAAAGATCTAAAGCTGTCATCATGGTATCAGAAGATCCAGTTACAGTTT
TTGAAGGGTTTTTTAGCTGAAGGGTTCGAACTACAAGTGAAGGAAAATGAAAAATTACAGAATCTGTTCGAGTTCAATCC
ACATCGAATTATAAATTCAGGCCGAGAATTGTATGTGTCCACCACTGATAAAATCAGTGTCTCTTTCTTTTTACCTGAAG
AAAGAGACCCTGAAAAATTAACAAAGGAAGATCGAAAGAAACAAAAGATTTGGAGAAACTCTGTTCTCAAGAAGGCACAG
ACACAATTAATGACCAAACATCGCCGTTTGTCTGAAGAAATGAACCGCTCCGACTATGATTGA

Alignment

ORF - retro_pper_52 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.92 %
• Parental protein coverage: 85.66 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RWAGRKPVLAAGDDEGYEEVPRPSQPKRLCHYLEVLYEKRGSNREEALASIIEVLTCRLENDYLEENFAS
          R.A.R....A.G........PRPS.PK....YLE.LYE.RGS.REEALASII.VL..RLE.D.LE.NFAS
Retrocopy RRACRRRHVADGGADSSVQLPRPSAPKTIYSYLEGLYERRGSDREEALASIIGVLNSRLEHDFLENNFAS

Parental  FLYRGLNSLKIGSSKEKQLSLHVIGLLAIIICCEDKLSEVYRVLLPVLSESLKSGTTTLKMLNCLAIVGF
          FLYRGLNS.K.GSSKEKQLSLH..GLLA.I...EDK.SEVYR.LLPVLS...KSGTT..K.L.CL.IV.F
Retrocopy FLYRGLNSFKKGSSKEKQLSLHLVGLLAMIVGYEDKVSEVYRELLPVLSKAPKSGTTAVKVLDCLGIVAF

Parental  FGSTNSEETEGAMQIIWKFIHPESVNDVNTKKHSPEVLVAAIYSWLFLLTSMEGWRLSHNSWNGAVCYFS
          FG.TNSE....AMQIIWKFIH.....D.N..KHS..VLVAAI..WLFLLTS.EGWRL.HN.WNGA..YFS
Retrocopy FGATNSEDIQNAMQIIWKFIHADQ-SDANEEKHSAAVLVAAINAWLFLLTSVEGWRLRHNNWNGAIDYFS

Parental  N-LLEHGDKLVRVAACEALALIFETGNLDK
          ..LL.H.DKLVRVAA.EALALIFETG.L.K
Retrocopy TLLLKHDDKLVRVAASEALALIFETGSLEK

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_52 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_ppa009746mg	1 retrocopy	retro_pper_52 ,