RetrogeneDB ID: retro_pper_26

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_6:26390384..26391410(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa018577mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa005183mg
• Aliases: None
• Description: None

Sequence

>retro_pper_26
ATGGCTTTAATGGAAAGAACTCCAGGCAGATGGCCACGTCCTGTTTGGCATGCTCCTTGGAAGATGTACAAGGTCATTAG
CGGCCACTTGGGATGGGTACGATCCATTGCCTTTGATCCAAGCAACAAATGGTTCTGCACCGGCTCTGCAGATCGCACGA
TCAAGATATGGGATGTAGGAACCGGAACCCTACAGCTCTCACTGACAAGACACATTGAACAAGTACGAGGACTTGCTGTT
AGCAGCAGGCACACCTACATGTTCTCTGCCGGCGATGACAAGCTGGTTAAATGCTGGGACCTCGAACAGAACAAGGTTGT
CCGTTCATATCATGGTCATCTGAGCGGTGTTTACTGCTTGGCGGTTCATCCCACGCTTGATATTTTACTCACCGGTGGAC
GCGATTCTGTGTGCCGGGTTTGGGATATTCGAAGCAAGGTGCAAGTTTTTGCATTGTCGGGGCATGACGACACAGTTTGC
TCAGTTTTCACTCGACCGACAGATCCACAAGTTGTCACTGGCTCTCATGACTCGACCATCAAGCTCTGGGACTTGAGGTA
TGGGAAAACAATGTCAACACTTACACACCATAAGAAATCTGTGCGTGCAATGGCGCAACATCCTAAGGATATCAATTCTT
TCGCATCTGTATCCGCTGACAACGTGAAGAAGTTCAACTTTCCGAACGGCGAATTTTTGCACAACATGCTGTCTCAGCAG
AAAACTATAGTTAATGCAATGGCTGTGAATCGGGATGGTGTCATGGCAACTGGAGGTGACAGTGGGAGTGTGTGGTTTTG
GGATTGGAAGAGCGGTCATAATTTTCAACAATCGCAAACAATTGCGCAGCCTGGCTCCCTGGATGGTGAAGCTGCTGTAT
ATGCTCTTTCCTTTGATAGAACTGGTACAAGGTTGGTGACTTGCGGAGCTGATAAGACGATCAAAATGTGGAAAAAGGAC
CAAAATGCCACTCCAGAAACCCATCCTCTCAATTTCAAGCCTCCTAAAGATATTCGACGGTTCTAG

Alignment

ORF - retro_pper_26 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 90.0 %
• Parental protein coverage: 71.67 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ALMERIPSRWPRPVWHAPWKIYRVISGHLGWVRSIAFDPSNKWFCTGSADRTIKIWDVGTGTLQLSLTGH
          ALMER.P.RWPRPVWHAPWK.Y.VISGHLGWVRSIAFDPSNKWFCTGSADRTIKIWDVGTGTLQLSLT.H
Retrocopy ALMERTPGRWPRPVWHAPWKMYKVISGHLGWVRSIAFDPSNKWFCTGSADRTIKIWDVGTGTLQLSLTRH

Parental  IEQIRGLAVSSRHTYMFSAGDDKLVKCWDLEQNKVIRSYHGHLSGVYCLALHPTLDVLLTGGRDSVCRVW
          IEQ.RGLAVSSRHTYMFSAGDDKLVKCWDLEQNKV.RSYHGHLSGVYCLA.HPTLD.LLTGGRDSVCRVW
Retrocopy IEQVRGLAVSSRHTYMFSAGDDKLVKCWDLEQNKVVRSYHGHLSGVYCLAVHPTLDILLTGGRDSVCRVW

Parental  DIRSKMQVHALSGHDNTVCSVFTRPTDPQVITGSHDSTIKFWDLRYGKTMSTLTHHKKSVRAMAQHPKE-
          DIRSK.QV.ALSGHD.TVCSVFTRPTDPQV.TGSHDSTIK.WDLRYGKTMSTLTHHKKSVRAMAQHPK..
Retrocopy DIRSKVQVFALSGHDDTVCSVFTRPTDPQVVTGSHDSTIKLWDLRYGKTMSTLTHHKKSVRAMAQHPKDI

Parental  NCFASASADNIKKFNLPKGEFLHNMLSQQKTIINAMAVNEDGVMATGGDNGSVWFWDWKSGHNFQQSQTI
          N.FAS.SADN.KKFN.P.GEFLHNMLSQQKTI.NAMAVN.DGVMATGGD.GSVWFWDWKSGHNFQQSQTI
Retrocopy NSFASVSADNVKKFNFPNGEFLHNMLSQQKTIVNAMAVNRDGVMATGGDSGSVWFWDWKSGHNFQQSQTI

Parental  VQPGSLDSEAAIYALSYDVTGTRLVSCEADKTIKMWKQDENATPETHPLNFRPPKDIRRF
          .QPGSLD.EAA.YALS.D.TGTRLV.C.ADKTIKMWK.D.NATPETHPLNF.PPKDIRRF
Retrocopy AQPGSLDGEAAVYALSFDRTGTRLVTCGADKTIKMWKKDQNATPETHPLNFKPPKDIRRF

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_26 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
Brassica oleracea	Bo7g104100	1 retrocopy	retro_bole_32,
Prunus persica	PRUPE_ppa005183mg	1 retrocopy	retro_pper_26 ,