RetrogeneDB ID: retro_pper_24

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_6:8787672..8788974(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa006000mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa009056mg
• Aliases: None
• Description: None

Sequence

>retro_pper_24
ATGCAGGCCCTTCTTCCCCCCTCCTCTAATCATCTCAAAATTAGCAACGTCCCCACCCGACTCACCCGTCTCGCCCCGAA
CCGTCTCGCCGTGGTCAAATGCGCCTACCGTTCCGACGCCGTCCACTTTCACAACGGCATCGGCTCCAGCCGCGCCGACT
GGCAGAGCTCCTGCGCCATTCTCGCCAGCAACGTCGTCTCCCAGCAGCCCCAGCCACCTCCCGACAAACCCGGAACCGCT
GACCACGTCGCTTCGGTCAACGGCCACAAGACCAACGTTGACCTCGACCTAGTCCCCATCGAGAAGCTCTCCTCCTCCTC
CTCCGGTGATGACAAGTCCTGTTCTCCCCCTCCGCCTCCCCGGGCCCTCACCATCACCGACCTCTCCCCGGCTCCGATGC
ACGGCTCGCAGCTGCGCGTGGCCTACCAGGGCGTCCCCGGCGCGTACTCCGAAGCCGCCGCCGGCAAAGCCTACCCGAAA
TGCGAGGCCATCCCCTGCGACCAGTTCGAAGTCGCCTTCCAAGCCGTCGAGCTCTGGATCGCCGATCGAGCCGTCTTGCC
GGTCGAGAACTCCCTCGGCGGCTCAATTCACCGAAATTACGATCTTCTCCTCCGCCACCGCCTCCACATCGTCGGCGAGG
TCCAGCTCCCGGTCCACCACTGCCTCCTCGCCCTCCCAGGGGTCAGAAAAGAGTACTTGAACCGAGTCATCTCGCATCCT
CAAGCTCTGGCTCAGTGTGAGTTGACTCTGACCAAACTCGGCCTCAACGTCGCGCGCGAAGCCGTCGACGACACCGCTGG
AGCCGCCGAGTTCGTCGCTGCCAACAACCTCCGCGACACCGGAGCGATTGCCTCGGCTCGCGCCGCCGAGCTGTACGGCC
TGGAGATCCTGGAGACTGGGATCCAGGACGACTCGAGCAACGTGACTCGGTTTGTGATGCTGGCTCGGGAGCCAATCATT
CCCCGCACGGATCGGCCGTTCAAGACGAGCATCGTCTTTGCTCACGACAAAGGGACCTCCGTACTGTTCAAGGTCCTATC
GGCCTTCGCCTTCAGGAACATCAGCTTGACGAAGATCGAGTCGAGGCCGCACCGGAACCGTCCGATCAGGCTGGTGAGCG
ATTCGAACGAAGGGACGGCGAAGCATTTCGAGTACCTGTTCTATGTGGACTTCGAAGCGTCCATGGCGGAGGTTAGGGCA
CAGAACGCGTTGGCGGAGGTTCAGGAATTCACGTCTTTCTTGAGAGTCCTCGGAAGCTACCCCATGGATATGACTCCGTG
GTCTCCTTCCAGGGGCGATTAG

Alignment

ORF - retro_pper_24 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.38 %
• Parental protein coverage: 98.7 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PKPLTANDLSSSS-DGSKVRVAYQGLPGAYSEDAALKAYPKCETVPCDQFEAAFKAVELWLVDKAVLPIE
          P..LT..DLS.....GS..RVAYQG.PGAYSE.AA.KAYPKCE..PCDQFE.AF.AVELW..D.AVLP.E
Retrocopy PRALTITDLSPAPMHGSQLRVAYQGVPGAYSEAAAGKAYPKCEAIPCDQFEVAFQAVELWIADRAVLPVE

Parental  NSVGGSIHRNYDLLLRHRLHIVGEVQLQVNHCLLGLPDVTKEELKRVLSHPQALAQCEMTLSSLG--IVR
          NS.GGSIHRNYDLLLRHRLHIVGEVQL.V.HCLL.LP.V.KE.L.RV.SHPQALAQCE.TL..LG....R
Retrocopy NSLGGSIHRNYDLLLRHRLHIVGEVQLPVHHCLLALPGVRKEYLNRVISHPQALAQCELTLTKLGLNVAR

Parental  INADDSALAAQMVASTGLRNTGAVASARAAKIYGLDILAEKIQDDDDNITRFLILAREPIIPGTDRPYKT
          ...DD.A.AA..VA...LR.TGA.ASARAA..YGL.IL...IQDD..N.TRF..LAREPIIP.TDRP.KT
Retrocopy EAVDDTAGAAEFVAANNLRDTGAIASARAAELYGLEILETGIQDDSSNVTRFVMLAREPIIPRTDRPFKT

Parental  SVVFTLEEGPGVLFKALAVFALRGINLTKIESRPQRQRPLRVVDDSNEGSAKYFDYLFYIDFEASMAEPR
          S.VF....G..VLFK.L..FA.R.I.LTKIESRP.R.RP.R.V.DSNEG.AK.F.YLFY.DFEASMAE.R
Retrocopy SIVFAHDKGTSVLFKVLSAFAFRNISLTKIESRPHRNRPIRLVSDSNEGTAKHFEYLFYVDFEASMAEVR

Parental  AQYALGHLQEFARFLRVLGSYPMDTIP
          AQ.AL...QEF..FLRVLGSYPMD..P
Retrocopy AQNALAEVQEFTSFLRVLGSYPMDMTP

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_24 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_ppa009056mg	1 retrocopy	retro_pper_24 ,