RetrogeneDB ID: retro_pper_50

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_7:20787284..20788547(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa006261mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa005333mg
• Aliases: None
• Description: None

Sequence

>retro_pper_50
ATGGCTAAGGCTTTCTCTGAGTTTCGGCCACTGGACGAGACATCCCTCATAGACTACATAAAATCTGTACCCTCTCTCTG
TTCCAAGCTCCACAACAACCTCAACGGTTTGGAAATCAAAGAAGTAGGAGATGGCAACCTCAACTTCGTCTTCATCGTCG
TTGGTTCTTCTGGTTCTTTTGTCATCAAGCAGGCTCTTACATACGTGCGTTCCGTAGGCGAGGCATGGCCAATGTCAAAA
GACCGAGCCTATTTTGAAGCAGCGGCGCTGAAAAAACACGGTCATTTGTGTCCCGGCCACGTGCCTGAAGTTTATCATTT
TGATCGCACTATGTCATTGATTGCAATGCGTTACTTGAAGCCTCCGCATATCATTCTGAGAAAAGGGTTGGTTGCTGGGA
TTGAGTACCCTCTGCTGGCGGAAGACATGTCGGATTATATGTCGAAGACTCTGTTTTACACTTCCCTCATTTACAATTCC
ACAACAGAGCACAAACAGGGTGTTGCTGAGTTTTGTGGGAATGTGGAGATGTGCAGGCTCACCGAGCAGGTCGTCTTTTC
TGATCCTTATAAAGTTTCTAAATATAATCGATGGACCTCTCCTTATCTTGATTCTGATGCTGCGGCTCTGAGGGAAGATG
AGGCTTTGAAGATTGAGGTTGCTGAGTTGAAATCTCTCTTCTGTGAGAGAGCCCAAGCTCTGATACATGGAGATCTTCAT
ACCAGTTCTGTAATGGTGACCCAAGAATCAACCCAAGTTATAGACTCTGAATTTGCATTTTATGGGCCAATGGGTTTTGA
TGTTGGTGCTTTTCTGGGCAACTTGATTTTGGCTTTTTTTGCACAAGATGGGCATGCGGATGAAAAGAATGATAGAGAAG
CATACAAAGGTTGGATTTTGAGGACAATTGAGAACACTTGGAATCTTTTTCAGAACAAGTTTATAGCTCTGTGGGATCAG
CACAAAGATGGTTCTGGTGAGGCCTATCTGCCTGCGATTTACAACAGCTCTGAGATTCAGCAGCTTGTGCAAAAGAAATT
TATGGAAGATTTGTTTCATGACACCCTGGGATTTGGTGCTGCCAAGATGATAAGGAGAATTGTCGGAGTGGCGCATGTTG
AGGATTTTGAGGCGATAAGTGATGCTAGCAAACGGGCGGGTTGCGAGCGAAGGGCTCTTGAGTTGGCAAAGCTGCTTCTC
AATGAGAGGCGAAAATTTCAGAACATTGCTCAAGTTGTTTCAGCCATTAAACAAGGCAAATAA

Alignment

ORF - retro_pper_50 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.76 %
• Parental protein coverage: 88.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AFSEFRPLDEKVLIEYIKATPSLSSKLNNKFDNLTIKEVGDGNLNFVFIVVGSTGSFVIKQALPYIRCIG
          AFSEFRPLDE..LI.YIK..PSL.SKL.N....L.IKEVGDGNLNFVFIVVGS.GSFVIKQAL.Y.R..G
Retrocopy AFSEFRPLDETSLIDYIKSVPSLCSKLHNNLNGLEIKEVGDGNLNFVFIVVGSSGSFVIKQALTYVRSVG

Parental  ESWPMTKERAYFEALALREHGGLSPDHVPEVYHFDRTMSLIGMRYLEPPHIILRKGLIAGIEYPLLADHM
          E.WPM.K.RAYFEA.AL..HG.L.P.HVPEVYHFDRTMSLI.MRYL.PPHIILRKGL.AGIEYPLLA..M
Retrocopy EAWPMSKDRAYFEAAALKKHGHLCPGHVPEVYHFDRTMSLIAMRYLKPPHIILRKGLVAGIEYPLLAEDM

Parental  SDYIARTLFFTSLLYRNTTDHKRAVAEFCGNVELCRLTEQVVFSDPYKISQYNHWTSPYLDSDAEAIRED
          SDY...TLF.TSL.Y..TT.HK..VAEFCGNVE.CRLTEQVVFSDPYK.S.YN.WTSPYLDSDA.A.RED
Retrocopy SDYMSKTLFYTSLIYNSTTEHKQGVAEFCGNVEMCRLTEQVVFSDPYKVSKYNRWTSPYLDSDAAALRED

Parental  NALKLEVAELKSLFCERAQALIHGDLHTGSVMVTHDSTQVIDPEFAYYGPMGFDIGAFLGNLILAFFAQD
          .ALK.EVAELKSLFCERAQALIHGDLHT.SVMVT..STQVID.EFA.YGPMGFD.GAFLGNLILAFFAQD
Retrocopy EALKIEVAELKSLFCERAQALIHGDLHTSSVMVTQESTQVIDSEFAFYGPMGFDVGAFLGNLILAFFAQD

Parental  GHADEQNDRKAYKDWILRTIENTWNLFDRKFVALWDTNND-SGDAYLPAIYNNPGLLQLVQKKYIKDLLH
          GHADE.NDR.AYK.WILRTIENTWNLF..KF.ALWD...D.SG.AYLPAIYN.....QLVQKK...DL.H
Retrocopy GHADEKNDREAYKGWILRTIENTWNLFQNKFIALWDQHKDGSGEAYLPAIYNSSEIQQLVQKKFMEDLFH

Parental  DSLGFGAAKMIRRIVGVAHVEDFESIADASKRAGCERRALEVAKLLLKERRKFQGIAEVISAIQQ
          D.LGFGAAKMIRRIVGVAHVEDFE.I.DASKRAGCERRALE.AKLLL.ERRKFQ.IA.V.SAI.Q
Retrocopy DTLGFGAAKMIRRIVGVAHVEDFEAISDASKRAGCERRALELAKLLLNERRKFQNIAQVVSAIKQ

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_50 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_ppa005333mg	1 retrocopy	retro_pper_50 ,