RetrogeneDB ID: retro_pper_53

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:41595164..41596343(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa018641mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa006446mg
• Aliases: None
• Description: None

Sequence

>retro_pper_53
CTAGTCGCCATCACCCTGGCTCTGCTAACTTGCGGGCCTCGGTGCATTTACTCGGACGACCAGCGGCTCCTGGTGAACAT
GACTCTGGTCCGGAATGCTTCGGCTCTCGGAGCTTTTTGCTTGGATGGGAGTTTGCCTGCGTATCACCTGCACAGAGGAT
TCGGGGGTGGAGCAAGAAACTGGCTTTTACAGTTTGAAGGTGGAGGGTGGTGCAATAGCACAAAATCATGCTTGGACAGA
GCCAACACCCGTAGAGGATCAACACGCTACATGAGCAAGTGGGAGGTCTTCTCTGGAATTCTAAGCAATAATGCTTCTCT
AAATCCAGATTTTTACAATTGGAACCGTGTGAAGCTTAGATATTGTGATGGAGCTTCATTTGCTGGAGATGCAGTATATA
AAAACGGGACGTCGTTGCTCTATTTCAGAGGGCAAAAGATTTGGGAAGCAATCATTCTTGATCTTCTGCCAAAAGGTTTA
GGACAGGCAAGAAAGGCTCTGCTATCAGGTTCTTCTGCTGGGGGTTTATCATCCTTTTTGCATTGTAACAACTTCACTAA
ATATTTACCAAGCACTGCCAGTGTGAAATGCTTGAGCGATGCCGGATTCTTTCTTGACGAAAGAGATATAAGTTCTAACC
ACACCATGAGGTCTTTCGTGAAAGATGTTGTTTCTCTACACGGGGTAGAGAAGAATCTGGATGAGAACTGCACCGCCAGC
TACCTTAATTTTCCCGAGCTGTGTTTCTTCCCACAGTACGCAATGAAGTTCATTACACCACCTTTTTTCATATTGAACTC
AGCTTATGATGTTTACCAGTTCCATCATATATTGGTGCCGCCTTCAGCTGATCCACAAGGCCACTGGAATCGTTGCAAAC
TGAATCCGGCAGCGTGCAATCCTCAACAGTTAAATGCATTGCAAGAATTCAGGCGTGGCATGATTGTTGCTGTGGGATTG
TCCTACAAATATTCGAGACGAGGAGGCTTCTTCATTAATTCATGCTTTGCTCACGGCCAAAGTGAGTCTCAAGACACGTG
GTTTGCTGCAGACTCTCCAAGGGTTCACAATAGGACAATTGCAGAAGCAGTAGGTGATTGGTACTTCAACAGAAGGGCAA
CAAAGGAAATTGACTGCCCATATCCTTGTGTCACTACCTGCCATAACCTTATACCATAA

Alignment

ORF - retro_pper_53 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.03 %
• Parental protein coverage: 95.38 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LVAIILALLMCSPRCIYSAERRLLVNMTLIRNAPALGAFCLDGSLPAYHLHRGFGAGARNWLLQFEGGGW
          LVAI.LALL.C.PRCIYS...RLLVNMTL.RNA.ALGAFCLDGSLPAYHLHRGFG.GARNWLLQFEGGGW
Retrocopy LVAITLALLTCGPRCIYSDDQRLLVNMTLVRNASALGAFCLDGSLPAYHLHRGFGGGARNWLLQFEGGGW

Parental  CNDIESCLERAKSRRGSTRYMTKWEVFSGILSNNASLNPDFYNWNRVKLRYCDGASFAGDAVFKNGTSLL
          CN...SCL.RA..RRGSTRYM.KWEVFSGILSNNASLNPDFYNWNRVKLRYCDGASFAGDAV.KNGTSLL
Retrocopy CNSTKSCLDRANTRRGSTRYMSKWEVFSGILSNNASLNPDFYNWNRVKLRYCDGASFAGDAVYKNGTSLL

Parental  YFRGQKIWEAIILDLLPKGLGQARKALLSGCSAGGLASFLHCNNFTKYLPSNASVKCLSDAGFFLDERDI
          YFRGQKIWEAIILDLLPKGLGQARKALLSG.SAGGL.SFLHCNNFTKYLPS.ASVKCLSDAGFFLDERDI
Retrocopy YFRGQKIWEAIILDLLPKGLGQARKALLSGSSAGGLSSFLHCNNFTKYLPSTASVKCLSDAGFFLDERDI

Parental  TSNHTMRYFIKDVVSLQGVEKNLDENCTASSLDFPELCFFPQYALKFITTPFFILNSAYDVYQFHHILVP
          .SNHTMR.F.KDVVSL.GVEKNLDENCTAS.L.FPELCFFPQYA.KFIT.PFFILNSAYDVYQFHHILVP
Retrocopy SSNHTMRSFVKDVVSLHGVEKNLDENCTASYLNFPELCFFPQYAMKFITPPFFILNSAYDVYQFHHILVP

Parental  SSADPHGHWNRCKLNPAACNPEQLNTLQEFRRDMIVAMGLFYKYSRRGGLFINSCFAHCQSESQDTWFSA
          .SADP.GHWNRCKLNPAACNP.QLN.LQEFRR.MIVA.GL.YKYSRRGG.FINSCFAH.QSESQDTWF.A
Retrocopy PSADPQGHWNRCKLNPAACNPQQLNALQEFRRGMIVAVGLSYKYSRRGGFFINSCFAHGQSESQDTWFAA

Parental  DSPRVHDKTIAEAVGDWYFSRRITKEIDCPYPCDTTCHNLIP
          DSPRVH..TIAEAVGDWYF.RR.TKEIDCPYPC.TTCHNLIP
Retrocopy DSPRVHNRTIAEAVGDWYFNRRATKEIDCPYPCVTTCHNLIP

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_53 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_ppa006446mg	1 retrocopy	retro_pper_53 ,