RetrogeneDB ID: retro_pper_37

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:34001297..34002659(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa005575mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa005881mg
• Aliases: None
• Description: None

Sequence

>retro_pper_37
ATGGAAGAAAGGACTGTCTTGTTTGGGAAATACGAGATGGGGAGGCTTCTGGGCAAAGGGACCTTTGCGAAGGTCTACTA
TGGCAGACAAATCGCCTCCAACGAAAGCGTGGCGATCAAAGTCATCAGCAAAGACCAGGTGAAGAAAGAAGGCATGATGG
AGCAGATCAAGCGAGAGATCGAAGTGATGCGTTTAGTTCGTCACCCAAACATTGTCGAGCTCAAGGAGGTCATGGCCACC
AAGACCAAGATCTTCTTCGTCATGGAGTACGTCAAGGGCGGCGAGCTCTTCGCGAAGGTCGCCAAGGGGAAGCTGAAGGA
AGATCAGGCCCGTAAATACTTCCAGCAGCTGATCAGCGCCGTCGATTTCTGCCACAGCCGAGGCGTCTCCCACCGCGATT
TGAAGCCCGAGAATCTGCTGGTCGACGAGAACGAAGATCTGAAAATCTCCGACTTCGGCCTCTCCGCCCTGCCGGAGCAG
CTCCGGAACGACGGCATGTTGCACACCCAGTGTGGGACCCCTGCTTACGTGGCGCCGGAGGTTCTGAGGAAGAAAGGGTA
CGACGGATCCAAGGCTGACATCTGGTCCTGCGGCGTTGTGCTCTTCGTCTTGCTCGCTGGGTTTCTTCCCTTTCAGGACG
AGAACCTCATGAAGATGTACAGGAAGGTATTCAAAGCTGAATTCGAGTGTCCGCCATGGTTTTCGACCGAGGCGAAACGG
CTGGTTTCGAAACTCCTGGTCTCCGACCCGGAGAAACGCATCACCATCCCTGCCATCATGCGCGTGCCTTGGTTTCGCAA
GGGGTTCACGAGGCCCGTGGCGTTTTCGATGCACCAGGAACTTGTTTGTGAAAAGTCTGAAGAGGAAGAAGTGCAAAGCG
ATGTTCAAAAGGCCAGCAGCAACAAGTCGTCGTCGCCCAAGTTCTTGAACGCGTTCGAGTTCATTTCGTCCATGTCTTCC
GGGTTTGATTTGTCGAATTTGTTCGAGAGCAAGCGGAAGGCGGGGTCCATGTTCACGTCCAAGTGCTCAGCCACGGCGAT
TATGGCGAAGATTGAGCTGGTTGCCAAGACCCTGAGCTTCAAAGTGGCCAAGGTGAAGGACTTCAAGATAAGGCTGCAAG
GGCCCAATGAGGGAAGGAAAGGGCTGCTTTCGGTGACGGCGGAGGTGTTTGAGGTGGCGCCGGAGGTGGCGGTGGTGGAG
TTTTCGAAATCGGCCGGCGATACTTTGGAGTATGCTAAGTTCTGTGATGAAGATGTTAGGCCAGCATTGAAAGACATTGT
TTGGACATGGCAAGGTGACGGTGACGGTGACGGTGACGGTAACGGTGACGGTAAAGCCGAGGGTGATCAACAAGACTCAT
GA

Alignment

ORF - retro_pper_37 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.27 %
• Parental protein coverage: 96.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GKYEVGRTIGEGTFAKVKFARNSDTGEPVALKIIDKEKVLKHKMAEQIKREIATMKLIKHPNVVRLFEVM
          GKYE.GR..G.GTFAKV...R.....E.VA.K.I.K..V.K..M.EQIKREI..M.L..HPN.V.L.EVM
Retrocopy GKYEMGRLLGKGTFAKVYYGRQIASNESVAIKVISKDQVKKEGMMEQIKREIEVMRLVRHPNIVELKEVM

Parental  GSKTKIFIVMEFVTGGELFDKIVNNGRMREDEARRYFQQLINAVDYCHSRGVYHRDLKPENLLLDTYGNL
          ..KTKIF.VME.V.GGELF.K....G...ED.AR.YFQQLI.AVD.CHSRGV.HRDLKPENLL.D....L
Retrocopy ATKTKIFFVMEYVKGGELFAKVAK-GKLKEDQARKYFQQLISAVDFCHSRGVSHRDLKPENLLVDENEDL

Parental  KVSDFGLSALSQQVRDDGLLHTTCGTPNYVAPEVLNDRGYDGATADMWSCGVILFVLLAGYLPFDDSNLM
          K.SDFGLSAL..Q.R.DG.LHT.CGTP.YVAPEVL...GYDG..AD.WSCGV.LFVLLAG.LPF.D.NLM
Retrocopy KISDFGLSALPEQLRNDGMLHTQCGTPAYVAPEVLRKKGYDGSKADIWSCGVVLFVLLAGFLPFQDENLM

Parental  TLYKKISAAEFTCPPWLSFGAMKLIARILDPNPMTRITIAEILEDEWFKKDY-KSLVFEEKEDTNLDDVE
          ..Y.K...AEF.CPPW.S..A..L....L...P..RITI..I....WF.K.......F...........E
Retrocopy KMYRKVFKAEFECPPWFSTEAKRLVSKLLVSDPEKRITIPAIMRVPWFRKGFTRPVAFSMHQELVCEKSE

Parental  AVFKDSEEHHVTEKKEEQPAAMNAFELI-SMSKGLNLGNLFDVEQEFKRETRFTSKCPANEIIHKIEEAA
          .....S........K...P...NAFE.I.SMS.G..L.NLF..E...K....FTSKC.A..I..KIE..A
Retrocopy EEEVQSDVQKASSNKSSSPKFLNAFEFISSMSSGFDLSNLF--ESKRKAGSMFTSKCSATAIMAKIELVA

Parental  KPLGFDVHK-KNYKLRLENMKAGRKGNLNVATEVFQVAPSLHMVEVRKAKGDTLEFHKFY-KNLSTCLED
          K.L.F.V.K.K..K.RL.....GRKG.L.V..EVF.VAP....VE..K..GDTLE..KF........L.D
Retrocopy KTLSFKVAKVKDFKIRLQGPNEGRKGLLSVTAEVFEVAPEVAVVEFSKSAGDTLEYAKFCDEDVRPALKD

Parental  VVWKTEED
          .VW....D
Retrocopy IVWTWQGD

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_37 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa005881mg	1 retrocopy	retro_pper_37 ,
Solanum lycopersicum	Solyc01g008850.2	1 retrocopy	retro_slyc_12,