RetrogeneDB ID: retro_pper_36

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_7:10119550..10121257(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa003524mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa002510mg
• Aliases: None
• Description: None

Sequence

>retro_pper_36
ATGTTTGTGCCTGCTATTAAAGGCTCAGGTACTGAGGATCAGCAAAACAAGTGGTTGCCTTTGGCAACTAATATGCAAAT
TATTGGTACATATGCGCAGACTGAACTTGGGCATGGGTCGAATGTTCGAGGGCTTGAGACCACCGCAAGTTTTGATCCTA
AGACTGATGAGTTCATCATCCACAGTCCTACGCTGACCTCAAGCAAATGGTGGCCTGGTGGACTGGGAAAGATTGCAACA
CATGCTGTTGTCTATGCCAGGCTTATTACTGATGGGCAAGACCACGGTGTGCATGGTTTCATTGTCCAACTACGGAGCTT
GGATGATCACTTGCCTCTTCCAGGCATAACAGTTGGTGATATCGGGATGAAATTTGGAAGTGGAGCTTTCAATTCCATTG
ACAATGGTTTTGTAAGATTTGATCATGTCCACATACCAAGGAATCAAATGCTGATGAGGGTGTCACAGGTTACAAGAGAA
GGTAAATATGTACACTCCAATGTTCCCAGGCAGCTAGTTTATGGAGCTATGGTTTATGTGAGACAAATAATTGTGGTTGA
TGCTTCCATTGCCTTATCAAGAGCAGTATGTATAGCTGCTAGATATAGCGCTGTTCGTCGACAATTTGGTTCAGAGAATC
ATGAGATCAGTGGAACTCGTGTTGAGACACAGGTGATTGATTACAAGACTCAGCAAAGTAGACTTTTTCCTTTGTTGGCT
TCTGCCTATGCTTTCAGATTTATTGGTGAGTGGTTGAAATGGCTATATACTGATTTGACACAAAAACTGGAAGCAAATGA
TTTCTCCACATTGCCTGAGGCTCATGCCTGCACTGCTGGCTTGAAGTCCTTGACTACTTCTGCAGCTGCTGATGGCATCG
AAGAATGCCGAAAACTATGCGGTGGGCATGGCTACCTAACAAGCAGTGGCCTTCCAGAGTTATATGCTGTTTTTGTCCCT
GCATGTACATATGAAGGAGACAACATTGTTCTGCTTTTACAGGTTGCAAGGTTCCTCATGAAGACTATTTCCAAACTGCC
CTCTGGTCGAAATTACAAGCTTTCTGGAGCAACAGCTTACATGGGTCATATGGAACATTATTTGATCAAATATAGCTGCA
ATGTTCAAAAAGCTGAGGATTGGTTAAAACCCAATACAATACTTGAGGCATTTGAAGCAAGGGCTATCAGAATGTGTTTT
GCTTGTGCTCAAAACCTCACCAAGTTTGCAGATCAATCAGAGGGCTTTTCGGAACTCTCAACTGATTTAGTTGAGGCTGC
AATTGCTCATTGCCAACTAATTGTTGTTTCCAAGTTCATTAAAAAATTGCGGCAGAACATTGAAGGAAATGGAGTGAAAC
AACAGCTGGAGACCCTCTGCTACATATATGCTTTGCATCTGATTCATAAAAATTCGGGCGATTTTCTCTCCACGGGTTGC
TTAAACCCCAAGCAAGCTTCACTTGCCAATGATCAGCTTAGATCTCTGTATGCCAAGGTGCGTCCAAATGTAATTGCCCT
TGTTGATGCATTTAATTACAGTGACCACTTCCTTGGCTCAGTTCTTGGGTGCTATGATGGGAATGTTTATCCAAGGCTTT
ATGAAGAGGCATGTAAGGACCCTCTCAATGACTCAGTTGTGGCTGATGGCTATGGTGAATACATCCAGCCTCTGCTGAAC
CAGCAACTCCTAAATGCAAGGCTGTGA

Alignment

ORF - retro_pper_36 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.31 %
• Parental protein coverage: 51.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VETQVIDYKTQQSRLFPLLASAYAFRFVGEWLKWLYTDVTQKLQANDFSTLPEAHACTAGLKSLTTSATA
          VETQVIDYKTQQSRLFPLLASAYAFRF.GEWLKWLYTD.TQKL.ANDFSTLPEAHACTAGLKSLTTSA.A
Retrocopy VETQVIDYKTQQSRLFPLLASAYAFRFIGEWLKWLYTDLTQKLEANDFSTLPEAHACTAGLKSLTTSAAA

Parental  DAIEECRKLCGGHGYLSNSGLPELFAVYVPACTYEGDNIVLLLQVARFLMKTVSQLPSGK--KPVGTTSY
          D.IEECRKLCGGHGYL..SGLPEL.AV.VPACTYEGDNIVLLLQVARFLMKT.S.LPSG...K..G.T.Y
Retrocopy DGIEECRKLCGGHGYLTSSGLPELYAVFVPACTYEGDNIVLLLQVARFLMKTISKLPSGRNYKLSGATAY

Parental  MGRAEH-LIQCRCNVQKVEDWLKPSVILEAFEARAIRMSIACAQDLSKFSNQEEGFAELSSNLAEAAVAH
          MG..EH.LI...CNVQK.EDWLKP..ILEAFEARAIRM..ACAQ.L.KF..Q.EGF.ELS..L.EAA.AH
Retrocopy MGHMEHYLIKYSCNVQKAEDWLKPNTILEAFEARAIRMCFACAQNLTKFADQSEGFSELSTDLVEAAIAH

Parental  CQLIVVSKFIEKLQQDIPGKGVKEQLQNLCNIYALYIIHKHLGDFLSTGSITAKQASLANDQLRSLYSKL
          CQLIVVSKFI.KL.Q.I.G.GVK.QL..LC.IYAL..IHK..GDFLSTG....KQASLANDQLRSLY.K.
Retrocopy CQLIVVSKFIKKLRQNIEGNGVKQQLETLCYIYALHLIHKNSGDFLSTGCLNPKQASLANDQLRSLYAKV

Parental  RPNAIALVDAFNYTDHYLGSVLGRYDGDVYPNLYAEAWKDPLNESVVPDGYREYIQPLLKNQLRNARL
          RPN.IALVDAFNY.DH.LGSVLG.YDG.VYP.LY.EA.KDPLN.SVV.DGY.EYIQPLL..QL.NARL
Retrocopy RPNVIALVDAFNYSDHFLGSVLGCYDGNVYPRLYEEACKDPLNDSVVADGYGEYIQPLLNQQLLNARL

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_36 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa002510mg	1 retrocopy	retro_pper_36 ,