RetrogeneDB ID: retro_pper_43

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_4:17424767..17427182(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa001545mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa001552mg
• Aliases: None
• Description: None

Sequence

>retro_pper_43
ATGACCAACAAAGCTGATCAATCTTCGGACACTGGGGGTTCAAAGAAGGACTTCACTACGGCAATCCTTGACCGCAAGAA
GGCTGTGAATCGCCTTGTTGTGGATGAAGATATCCATGGCGACAACTCTGTCGTCACGCTCCACCCAGAGTCTATGGAGA
GGCTCCAGCTATTTCGTGGGGACACAATCTTGATCAAGGGAAAGAAAAGGAAGGACACAGTCTGCATTGTAGTTGCTGAT
GACAAATGTGAGGAACCAAAGATAAGGATGAACAAGGTTGTCAGGAGCAACCTACGGGTTAGGCTTGGAGATGTCGTTTC
TGTTTACCAATGCGCTGATGTCAAGTATGGAAACCGTGTTCACGTACTCCCTGTGGATGACAGTATCCAAGGGGTGACTG
GAAATCTGTTTGATACATATTTGAGACCTTATTTTTTCGAGGCCTACCGACCCGTGAGGACGGGTGATCTCTTCCTTGTG
AGAGGAGGGATGAGGAGTGTGGAGTTCAAGGTTGTCGAAACTGACCCTCCTGAGTACTGCGTGGTGGCTCCCGACACCGA
AATCTTCTGTGACGGGGAGCCTGTGAGAAGGGAGGATGAGGAGAGGTCATTAGATGAGGTTGGATATGATGATGTTGGTG
GAGTAAGGAAACAGATGGCTCAAATTCGCGAGTCGGTGGAGCTGCCGCTGAGGCATCCTCAGCTGTTTAAGATAATTGGT
GTGAAACCACCAAAGGGTATTCTGTTGTATGGACCTCCTGGAACTGGTAAGACTCTAATTGCCCGTGCTGTGGCTAATGA
GACTGGGGCATTCTTTTTCTGCATCAATGGACCAGAAATCATGTCGAAACTGGCTGGGGAGAGTGAAAGCAACCTCAGGA
AAGCTTTTCAGGAAGCAGAGAAGAACGCACCATCAATCATCTTTATTGATGAGATCGATTCAATTGCTCCCAAGAGAGAC
AAGACAAATGGAGAAGTTGAGAGGAGGATTGTTTCCCAACTCTTGACACTCATGGATGGACTAAAATCCCGTGCGCATGT
AATTGTTATCGGGGCTACAAATCGTCCAAATAGCATTGATCCAGCTCTCAGAAGGTTTGGAAGATTTGATAGGGAAATAG
ATATTGGTGTGCCAGATGAAGTTGGGCGTCTTGAGGTTCTGCGTATTCATACCAGGAACATGAAGCTTGCTGAAGAAGTT
AATTTAGAAAAGATAGCTAAGGACACACATGGTTATGTTGGTGCTGATCTAGCTGCTTTGTGTACTGAGGCTGCACTTCA
ATGCATCAGAGAGAAGATGGACGTGATTGACTTAGAAGATGAGGAAATAGATGCCGAGATACTTAATTCAATGGCAGTTA
CAAACGAGCACTTGCAGACGGCTCTTGGCACGAGCAACCCATCCGCTCTTCGTGAAACAGTTGTTGAGGTGCCGAATGTT
AGTTGGAAAGATATCGGAGGTCTCGAGAATGTCAAGAGGGAACTTCAAGAGACGGTTCAATATCCAGTGGAGCATCCTGA
GAAATTTGAGAAATTTGGAATGTCACCCTCAAAGGGAGTTCTTTTCTATGGCCCTCCTGGATGTGGTAAAACTCTTCTCG
CCAAAGCTATTGCCAATGAGTGTCAAGCAAACTTCATCAGTGTCAAGGGACCTGAATTGCTTACAATGTGGTTTGGAGAG
AGTGAGGCCAATGTACGTGAAATTTTCGACAAGGCCCGTGGATCTGCTCCATGTGTCCTGTTCTTTGATGAACTTGATTC
CATTGCTACACAGAGAGGTAGCAGCGTAGGCGATGCTGGGGGTGCTGCTGATAGGGTACTGAACCAACTCCTTACGGAAA
TGGATGGAATGTCTGCAAAGAAAACTGTTTTCGTCATTGGGGCCACCAACAGACCTGACATTATAGACCCTGCACTTCTA
CGTCCAGGCCGTCTGGATCAGTTGATTTACATCCCTCTCCCTGACGAAGAATCTCGCCATCAAATATTCAGGTCTTGCTT
GAGGAAATCTCCTGTTTCCAAAGATGTGGACATTAGAGCCCTTGCCAAGTACACCCTAGGATTTAGTGGTGCTGATATAA
CAGAAATATGCCAGCGTGCGTGCAAATATGCCATTAGAGAAAACATTGAGAAGGATATTGTGAGGGATAGGAGGAAAAAT
GAGAACCCTGAGGCTATGGAGGAGGATGTTGATGATGAAGTAGCAGAGATCATGGCAGCTCATTTCGAGGAATCCATGAA
GTATGCTCGTAGGAGTGTTAGTGATGCTGATATCCGTAAATACCAGACATTTTCTCAGACATTGCAGCAGTCAAGAGGGT
TGGGAACAGAATTCAGGTTTGCAGACAGAGCTGCTGGATATGACCCTTCTGCAACTGCGTCTGCTGGGGCTGATGGAGAT
GACTTATACAGTTAG

Alignment

ORF - retro_pper_43 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.54 %
• Parental protein coverage: 99.88 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AHPAESSDSKKKDFSTAILERKKSPNRLVVDEAINDDNSVVSMHPETMEKLQLFRGDTILIKGKKRKDTI
          A.........KKDF.TAIL.RKK..NRLVVDE.I..DNSVV..HPE.ME.LQLFRGDTILIKGKKRKDT.
Retrocopy ADQSSDTGGSKKDFTTAILDRKKAVNRLVVDEDIHGDNSVVTLHPESMERLQLFRGDTILIKGKKRKDTV

Parental  CIALADDTCEEPRIRMNKVVRSNLRVRLGDVVSVHQCPDVKYGKRVHILPIDDSIEGVTGNLFDAFLKPY
          CI..ADD.CEEP.IRMNKVVRSNLRVRLGDVVSV.QC.DVKYG.RVH.LP.DDSI.GVTGNLFD..L.PY
Retrocopy CIVVADDKCEEPKIRMNKVVRSNLRVRLGDVVSVYQCADVKYGNRVHVLPVDDSIQGVTGNLFDTYLRPY

Parental  FLEAYRPVRKGDLFLVRGGMRSVEFKVIETDPGEYCVVAPDTEIFCEGEPVKREDEER-LDEVGYDDVGG
          F.EAYRPVR.GDLFLVRGGMRSVEFKV.ETDP.EYCVVAPDTEIFC.GEPV.REDEER.LDEVGYDDVGG
Retrocopy FFEAYRPVRTGDLFLVRGGMRSVEFKVVETDPPEYCVVAPDTEIFCDGEPVRREDEERSLDEVGYDDVGG

Parental  VRKQMAQIRELVELPLRHPQLFKSIGVKPPKGILLYGPPGSGKTLIARAVANETGAFFFCINGPEIMSKL
          VRKQMAQIRE.VELPLRHPQLFK.IGVKPPKGILLYGPPG.GKTLIARAVANETGAFFFCINGPEIMSKL
Retrocopy VRKQMAQIRESVELPLRHPQLFKIIGVKPPKGILLYGPPGTGKTLIARAVANETGAFFFCINGPEIMSKL

Parental  AGESESNLRKAFEEAEKNAPSIIFIDELDSIAPKREKTHGEVERRIVSQLLTLMDGLKSRAHVIVIGATN
          AGESESNLRKAF.EAEKNAPSIIFIDE.DSIAPKR.KT.GEVERRIVSQLLTLMDGLKSRAHVIVIGATN
Retrocopy AGESESNLRKAFQEAEKNAPSIIFIDEIDSIAPKRDKTNGEVERRIVSQLLTLMDGLKSRAHVIVIGATN

Parental  RPNSIDSALRRFGRFDREIDIGVPDEVGRLEVLRIHTKNMKLSDDVDLERISKDTHGYVGADLAALCTEA
          RPNSID.ALRRFGRFDREIDIGVPDEVGRLEVLRIHT.NMKL...V.LE.I.KDTHGYVGADLAALCTEA
Retrocopy RPNSIDPALRRFGRFDREIDIGVPDEVGRLEVLRIHTRNMKLAEEVNLEKIAKDTHGYVGADLAALCTEA

Parental  ALQCIREKMDVIDLEDETIDAEILNSMAVTNEHFQTALGTSNPSALRETVVEVPNVSWEDIGGLENVKRE
          ALQCIREKMDVIDLEDE.IDAEILNSMAVTNEH.QTALGTSNPSALRETVVEVPNVSW.DIGGLENVKRE
Retrocopy ALQCIREKMDVIDLEDEEIDAEILNSMAVTNEHLQTALGTSNPSALRETVVEVPNVSWKDIGGLENVKRE

Parental  LQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISIKGPELLTMWFGESEAN
          LQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFIS.KGPELLTMWFGESEAN
Retrocopy LQETVQYPVEHPEKFEKFGMSPSKGVLFYGPPGCGKTLLAKAIANECQANFISVKGPELLTMWFGESEAN

Parental  VREIFDKARASAPCVLFFDELDSIATQRGSSSGDAGGAADRVLNQLLTEMDGMTAKKTVFIIGATNRPDI
          VREIFDKAR.SAPCVLFFDELDSIATQRGSS.GDAGGAADRVLNQLLTEMDGM.AKKTVF.IGATNRPDI
Retrocopy VREIFDKARGSAPCVLFFDELDSIATQRGSSVGDAGGAADRVLNQLLTEMDGMSAKKTVFVIGATNRPDI

Parental  IDPALLRPGRLDQLIYIPLPDEESRFQIFKSCLRKSPVSKDVDLRALARYTQGFSGADITEICQRSCKYA
          IDPALLRPGRLDQLIYIPLPDEESR.QIF.SCLRKSPVSKDVD.RALA.YT.GFSGADITEICQR.CKYA
Retrocopy IDPALLRPGRLDQLIYIPLPDEESRHQIFRSCLRKSPVSKDVDIRALAKYTLGFSGADITEICQRACKYA

Parental  IRENIEKDIERERRRGENPDSMDEDIDDEVAEIKAAHFEESMKYARRSVSDADIRKYQTFAQTLQQSRGF
          IRENIEKDI.R.RR..ENP..M.ED.DDEVAEI.AAHFEESMKYARRSVSDADIRKYQTF.QTLQQSRG.
Retrocopy IRENIEKDIVRDRRKNENPEAMEEDVDDEVAEIMAAHFEESMKYARRSVSDADIRKYQTFSQTLQQSRGL

Parental  GTEFRFADNQTGATGADPFATSAGGADEDDLYS
          GTEFRFAD....A.G.DP.AT...GAD.DDLYS
Retrocopy GTEFRFADR---AAGYDPSATASAGADGDDLYS

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_43 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Populus trichocarpa	POPTR_0006s12740	1 retrocopy	retro_ptri_3,
Prunus persica	PRUPE_ppa001552mg	1 retrocopy	retro_pper_43 ,