RetrogeneDB ID: retro_pper_10

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_3:1711592..1713101(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa004580mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa004665mg
• Aliases: None
• Description: None

Sequence

>retro_pper_10
ATGAACAACAAACCAAGCTCAGCCACACCACCATCATCAAAGCCCACATGGGTCCTGCCCTACAAGACCCAAAACCTCAC
TGACCTCTACACTTTGGGCAGGGTACTTGGCCAGGGTCAGTTTGGCACCACCTACCTCTGCACTGAAAGCTCCACAGGCC
ACCAATATGCCTGCAAATCCATCCCAAAGCGTAAGCTTCTTTGCATAGAGGACTATGAAGATGTGTGGAGGGAGATTCAG
ATGATGCACCACCTCTCTGAGCACCCCCATGTGGTGAGGATCAGAGGCACCTATGAGGACTCAGTTTCTGTGCACTTGGT
GATGGAGCTGTGCAAAGGAGGAGAGCTTTTTGATAGGATTGTGAAGAAGGGTCATTACAGTGAGAGAGAGGCTGCAAAGC
TCTTGAAGACCATTGTTGGGGTTGTGGAGACTTGCCATTCACTTGGGGTTATGCATAGAGATCTAAAGCCTGAGAATTTC
TTGTTTGATAGTGAGGAGGAAGATGCTGCTCTTAAAGCCACAGACTTTGGCCTCTCTGTTTTCTATAAGCCAGGTGAGAC
CTTTTCTGATGTTGTTGGTAGTCCGTATTATGTTGCCCCTGAGGTGCTGAGAAAGCATTATGGACCAGAATCAGATGTGT
GGAGTGCTGGAGTGATTTTGTACATTTTGTTAAGTGGGGTCCCTCCCTTTTGGGCTGAAACTGAGATTGGGATTTTTAGG
CAGATTTTGCAAGCAAGATTGGATTTTGAATCTGAACCATGGCCTAGGATTTCAGAAAGTGCTAAGGATCTGCTTAGGAA
AATGCTTGAAAGAAACCCAAAGAAAAGGGTAACTGCCCATGAGGTTCTTTGCCATCCATGGATCATAGATGACACCATGG
CTCCAGATAAGCCTCTTGATTCTGCAGTGCTTTCTAGGCTGAAGCAGTTCTCAGCCATGAACAAGCTCAAGAAGATGGCT
TTAAGGGTCATAGCTGAGAGGCTGTCTGAGGAAGAGATTGGTGGGTTGAAAGAGCTGTTCAAGATGATTGATGCAGATGA
CAGTGGAAGCATCACATTTGATGAACTCAAAGAGGGCTTGAGGAAAGTGGGATCTGAGCTTATGGAGTCTGAGATTAAGG
ATCTTATGGAGGCAGCTGACATTGACAACAGTGGAACAATTGACTATGGTGAGTTTCTTGCAGCCACAGTGCACTTAAAC
AAGTTGGAGAGGGAAGAGAATTTGTTATCAGCCTTCTCCTTTTTTGACAAAGATGGTAGTGGTTTCATAACCATTGATGA
GCTCAGGCAAGCCTGCAGGGAGTTTGGATTAGGCGAGCTCCATCTTGAGGACATGATCAAAGAAATTGATCAAGACAATG
ATGGGCAGATAGATTATGGAGAGTTTGCTGCAATGATGAGGAAGGGTAATGGAGGAGGCATTGGAAGGAGAACCATGAGA
AGAACAATGAATTTGGGGGATGCTTTGGGGCTAGGACTTGCTGACAATGGGCTCCAACTAACTGATTAG

Alignment

ORF - retro_pper_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.63 %
• Parental protein coverage: 98.59 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SQSGKPHSSHT-VLPYETPKLRDHYLMGKKLGQGQFGTTYLCIHKPTGDQYACKSIPKRKLLSPEDYDDV
          S....P.S..T.VLPY.T..L.D.Y..G..LGQGQFGTTYLC....TG.QYACKSIPKRKLL..EDY.DV
Retrocopy SSATPPSSKPTWVLPYKTQNLTDLYTLGRVLGQGQFGTTYLCTESSTGHQYACKSIPKRKLLCIEDYEDV

Parental  WREIQIMHHLSEHPSVVQIKGTYEDSVFVHLVMELCAGGELFDRIVQKGHYSEREAAKLIKTIVGVVEAC
          WREIQ.MHHLSEHP.VV.I.GTYEDSV.VHLVMELC.GGELFDRIV.KGHYSEREAAKL.KTIVGVVE.C
Retrocopy WREIQMMHHLSEHPHVVRIRGTYEDSVSVHLVMELCKGGELFDRIVKKGHYSEREAAKLLKTIVGVVETC

Parental  HSLGVMHRDLKPENFLFDTPSDDAMLKATDFGLSVFYKPGQVFYDVVGSPYYVAPEVLAKIYGPEVDVWS
          HSLGVMHRDLKPENFLFD....DA.LKATDFGLSVFYKPG..F.DVVGSPYYVAPEVL.K.YGPE.DVWS
Retrocopy HSLGVMHRDLKPENFLFDSEEEDAALKATDFGLSVFYKPGETFSDVVGSPYYVAPEVLRKHYGPESDVWS

Parental  AGVILYILLSGVPPFWAETEAGIFRQILDGNIDFESEPWPNISESAKDLMYKMLERDPKQRISAHEVLCH
          AGVILYILLSGVPPFWAETE.GIFRQIL....DFESEPWP.ISESAKDL..KMLER.PK.R..AHEVLCH
Retrocopy AGVILYILLSGVPPFWAETEIGIFRQILQARLDFESEPWPRISESAKDLLRKMLERNPKKRVTAHEVLCH

Parental  PWIVDDRVAPDKPLDSAVLSRLKQFSAMNKLKKMALRVIAERLSEEEIGGLKELFKMIDTDNSGTITFEE
          PWI.DD..APDKPLDSAVLSRLKQFSAMNKLKKMALRVIAERLSEEEIGGLKELFKMID.D.SG.ITF.E
Retrocopy PWIIDDTMAPDKPLDSAVLSRLKQFSAMNKLKKMALRVIAERLSEEEIGGLKELFKMIDADDSGSITFDE

Parental  LKAGLKRVGSELMESEIKSLMDAADIDNSGTIDYGEFLAATLHLNKMEREENLVAAFSFFDKDGSGYITI
          LK.GL..VGSELMESEIK.LM.AADIDNSGTIDYGEFLAAT.HLNK.EREENL..AFSFFDKDGSG.ITI
Retrocopy LKEGLRKVGSELMESEIKDLMEAADIDNSGTIDYGEFLAATVHLNKLEREENLLSAFSFFDKDGSGFITI

Parental  DELQQACKEFGLGDVHLDEIVKEIDQDNDGRIDYGEFAAMMRKGDGGFGKSRTMRSNLNFNLADAFGIKD
          DEL.QAC.EFGLG..HL....KEIDQDNDG.IDYGEFAAMMRKG.GG....RTMR...N...A...G..D
Retrocopy DELRQACREFGLGELHLEDMIKEIDQDNDGQIDYGEFAAMMRKGNGGGIGRRTMRRTMNLGDALGLGLAD

Parental  S
          .
Retrocopy N

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_10 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_ppa004665mg	1 retrocopy	retro_pper_10 ,