RetrogeneDB ID: retro_pper_39

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_4:8520237..8520831(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa011770mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa011784mg
• Aliases: None
• Description: None

Sequence

>retro_pper_39
ATGGGGAGGACTGGATTGTTTGATCTTGAAAGGCACTTTGCCTTTTATGGAGCATATCACAGCAACCCAGTTAACATTTT
GATACACACTTTCTTTGTGTGGCCATTATTCTTCACTGCTGCCGTTCTTCTCCATTTCACACCTTCTCTCTACAATTTCC
CATCTGGGATTAGTGAACATGGTCTTGAATTGAATTTTGGGTTTGTTTTTACTTTGATGTATGCTGTTTTTTATGTTTGC
TTGGATAAGAAAGCAGGGCCCCTGGCAGCTTTGCTCTGCTTTCTCTGTTGGGTTGGAGCCAGTTTTCTTGCTGGTGGACT
TGGGTTTTCCAGGTCATGGAAGCTTGTTCTGGCTGCTCAGTTGTTTTGCTGGACTGGACAGTTCATAGGCCATGGGATAT
TTGAGAAAAGAGCACCGGCTATTTCAGACAACTTTGTTCAAGCACTTCTAATGGGGCCTTACTTTGTGCTGCTTGAGCTT
CTTCAATCAGCCTTTGGCTATGAACCTTATCCAGGTTTCCATGCAAGTGTGCAAAAACAGATTGAAGCTGATATCAAAGA
GTGGAAGGCCAAGAACCAAAAGAAACTAACATGA

Alignment

ORF - retro_pper_39 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.17 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MGRTGLFDLERHFAFYGAYHSNPVNILIHTVFVWPILFTSLVLLYFTPSLYTFPAGLS-HGFLLNFGFVF
          MGRTGLFDLERHFAFYGAYHSNPVNILIHT.FVWP..FT..VLL.FTPSLY.FP.G.S.HG..LNFGFVF
Retrocopy MGRTGLFDLERHFAFYGAYHSNPVNILIHTFFVWPLFFTAAVLLHFTPSLYNFPSGISEHGLELNFGFVF

Parental  TVIYALFYVCLDKKAGSLAALLCVLCWVGASLLAARLGFSLAWKVVLAAQLFCWTGQFIGHGVFEKRAPA
          T..YA.FYVCLDKKAG.LAALLC.LCWVGAS.LA..LGFS..WK.VLAAQLFCWTGQFIGHG.FEKRAPA
Retrocopy TLMYAVFYVCLDKKAGPLAALLCFLCWVGASFLAGGLGFSRSWKLVLAAQLFCWTGQFIGHGIFEKRAPA

Parental  LLDNLVQAFLMAPFFVLLEVLQTAFGYEPYPGFHASVKEKIDANLKEWCEKKQKKIS
          ..DN.VQA.LM.P.FVLLE.LQ.AFGYEPYPGFHASV...I.A..KEW..K.QKK..
Retrocopy ISDNFVQALLMGPYFVLLELLQSAFGYEPYPGFHASVQKQIEADIKEWKAKNQKKLT

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_39 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_ppa011784mg	1 retrocopy	retro_pper_39 ,