RetrogeneDB ID: retro_pper_51

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_3:21211936..21212773(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa009766mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa009505mg
• Aliases: None
• Description: None

Sequence

>retro_pper_51
ATGGGAAGCAACCAAGCTGCCGTGTCCTTCCTCACCAACCTCGCTCGTGCCGCCTTCGGGCTCGGCGCCGGCGCCACCAT
CGTCAACTCCTCGCTCTACACCGTCGACGGCGGTCAGCGCGCCGTGCTCTTCGACCGTTTCCGTGGAGTCATCGACGACA
CCGTCGGCGAGGGGACCCATTTTCTGATCCCGTGGCTCCAGAAGCCCTACATCTTCGACATCCGTACCCGGCCCCACACC
TTCTCTTCGGTCTCCGGCACCAAGGATCTGCAGATGGTGAACCTCACCCTCAGGGTCCTCTCGCGTCCCGAGGTGTCCCG
CCTCCCTGAGATCTTCAAAACCCTAGGGCTCGAGTACGACGAGAAGGTCCTCCCCTCCATCGGAAACGAGGTGCTGAAGG
CCGTCGTAGCCCAATTCAATGCCGATCAGCTTCTGACGGAGCGTCCTCACGTGTCGGCTTTGGTGCGTGAGAGCTTGATC
CGCCGTGCTAAGGACTTCAACATCGTGCTGGATGACGTGGCGATTACGCACTTGTCGTACGGGATGGAGTTCTCGCGTGC
CGTTGAACAGAAGCAGGTGGCCCAGCAGGAGGCGGAGCGCTCCAAGTTTGTGGTGGCGAAGACGGAGCAGGAGAGGCGCG
CCGCGATTATTCGAGCCCAGGGTGAGAGCGAGGCTGCCAAGCTCATCTCTGACGCGACTGCGTCTGCGGGTCTGGGACTG
ATCGAGCTCAGAAGGATCGAGGCCTCCAGGGAGGTTGCTGCCACGCTTGCCAGGTCGCCCAATGTGTCTTACCTGCCTGG
TGGGAAGAACATGCTCTTTGCTCTCAACCCTCGTTGA

Alignment

ORF - retro_pper_51 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 54.51 %
• Parental protein coverage: 83.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GLGLYGVANSIYNVEGGHRAIVFNRIIGVKDKVYPEGTHLIIPWFERPVIYDVRARPHLVESTSGSRDLQ
          G.G...V..S.Y.V.GG.RA..F.R..GV.D....EGTH..IPW...P.I.D.R.RPH...S.SG..DLQ
Retrocopy GAGATIVNSSLYTVDGGQRAVLFDRFRGVIDDTVGEGTHFLIPWLQKPYIFDIRTRPHTFSSVSGTKDLQ

Parental  MVKIGLRVLTRPVPDQLPTVYRTLGENYNERVLPSIVHETLKAVVAQYNASQLITQRETVSREIRKILTE
          MV...LRVL.RP....LP....TLG..Y.E.VLPSI..E.LKAVVAQ.NA.QL.T.R..VS...R..L..
Retrocopy MVNLTLRVLSRPEVSRLPEIFKTLGLEYDEKVLPSIGNEVLKAVVAQFNADQLLTERPHVSALVRESLIR

Parental  RAANFNIALDDVSITTLTFGKEFTAAIEAKQVAAQEAERAKFVVDKAEQDKKSAIIRAEGEATSAKLIGE
          RA..FNI.LDDV.IT.L..G.EF..A.E.KQVA.QEAER.KFVV.K.EQ....AIIRA.GE...AKLI..
Retrocopy RAKDFNIVLDDVAITHLSYGMEFSRAVEQKQVAQQEAERSKFVVAKTEQERRAAIIRAQGESEAAKLISD

Parental  AIAN-NPAFITLRKIEAAREIAHTISNSSNKVYL
          A.A......I.LR.IEA.RE.A.T...S.N..YL
Retrocopy ATASAGLGLIELRRIEASREVAATLARSPNVSYL

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_51 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza meridionalis	OMERI03G37300	1 retrocopy	retro_omer_25,
Prunus persica	PRUPE_ppa009505mg	1 retrocopy	retro_pper_51 ,
Vitis vinifera	VIT_19s0085g00730	1 retrocopy	retro_vvin_19,