RetrogeneDB ID: retro_pper_7

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_3:21460442..21461432(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa008505mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa008063mg
• Aliases: None
• Description: None

Sequence

>retro_pper_7
ATGCCTGCCTTCCCAGAAGAGCCATTGCTTGCTCCGAACCCGGACCGCTTCTGTATGTTCCCGATCCAATACCCGGAAAT
CTGGGAGATGTACAAGAAGGCCGAGGCCTCCTTCTGGACCGCCGAGGAGGTTGATCTCTGCCAGGACCTACGCCATTGGG
AAACTCTAACCCCTGGCGAGAAGCACTTCATCACCCACGTGCTCGCCTTCTTCGCTGCCTCTGACGGCATCGTTTTGGAG
AATCTTGCCGGAAGGTTCATGAAGGAAGTCCAGGTCTCCGAGGCTCGCGCCTTCTACGGCTTCCAGATCGCCATCGAGAA
CATCCACTCCGAGATGTACAGCCTCCTTCTGGAGACCTACATCAAGGACTCGGACGAGAAGAACAGGCTTTTTCACGCCA
TCGATACCATTCCCTGCGTCACGAAGAAGGCCCAGTGGGCCCTACGCTGGATCGACGGCTCAGAATCGTTTGCGGAGCGG
ATCGTGGCCTTTGCTTGCGTGGAAGGGATATTCTTCTCGGGCAGTTTTTGCGCGATATTTTGGCTAAAGAAGCGCGGGTT
AATGCCGGGACTGACGTTCTCAAACGAGTTAATCTCGCGAGATGAGGGTTTGCACTGCGACTTCGCGTGCTTGCTGTACT
CGCTGCTGAGGAAGAAGCTGAGCGAGGATCGAGTGAAGTCGATCATACGAAACGCGGTGGAGATAGAGAGAGAGTTCGTG
TGCGAAGCCTTACCGTGCGCCCTAGTGGGGATGAACGGCGATCTGATGAGCCAGTACATCGAGTTCGTGGCGGATAGGCT
GCTGGGTGAGCTTGGGTACTCGAAGATTTACAATGTGCAGAACCCGTTCGATTGGATGGAGCTGATCAGCCTGCAGGGGA
AGACCAATTTCTTCGAGAAGAGGGTTGGGGAGTACCAGAAGGCTTCAGTGATGAATAGCATCAACGGCAATGTCGATTCG
CATATTTTCAAGATGGACGCGGATTTCTAA

Alignment

ORF - retro_pper_7 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.23 %
• Parental protein coverage: 93.37 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QEPILMEQSERFCMFPIRYKQVWEMYKKAMASFWTAEEVDLSQDVQQWDALSDSEKHFVSHVLAFFAASD
          .EP.L.....RFCMFPI.Y...WEMYKKA.ASFWTAEEVDL.QD...W..L...EKHF..HVLAFFAASD
Retrocopy EEPLLAPNPDRFCMFPIQYPEIWEMYKKAEASFWTAEEVDLCQDLRHWETLTPGEKHFITHVLAFFAASD

Parental  GIVLENLAARFLNDVQIPEARAFYGFQLAMENIHSEMYSLLLETYIKDSMEKHRLFNAIESIPCVSRKAK
          GIVLENLA.RF...VQ..EARAFYGFQ.A.ENIHSEMYSLLLETYIKDS.EK.RLF.AI..IPCV..KA.
Retrocopy GIVLENLAGRFMKEVQVSEARAFYGFQIAIENIHSEMYSLLLETYIKDSDEKNRLFHAIDTIPCVTKKAQ

Parental  WALDWIHSSNSFAERLVAFACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSL
          WAL.WI..S.SFAER.VAFACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSL
Retrocopy WALRWIDGSESFAERIVAFACVEGIFFSGSFCAIFWLKKRGLMPGLTFSNELISRDEGLHCDFACLLYSL

Parental  LRKQLPWQKVHVIVHEAVEIEIEFVCEALPCALIGMNSDLMSQYIKFVADRLLVALGYQRKYNVENPFDW
          LRK.L....V..I...AVEIE.EFVCEALPCAL.GMN.DLMSQYI.FVADRLL..LGY...YNV.NPFDW
Retrocopy LRKKLSEDRVKSIIRNAVEIEREFVCEALPCALVGMNGDLMSQYIEFVADRLLGELGYSKIYNVQNPFDW

Parental  MEFISLQGKTNFFERRVGDYQKASVMSGLQDGGKNFIFKMDADF
          ME.ISLQGKTNFFE.RVG.YQKASVM..........IFKMDADF
Retrocopy MELISLQGKTNFFEKRVGEYQKASVMNSINGNVDSHIFKMDADF

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_7 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 6 parental genes, and 6 retrocopies.

Species	Parental gene accession	Retrocopies number
Amborella trichopoda	AMTR_s00025p00110680	1 retrocopy	retro_atri_2,
Brassica rapa	Bra014962	1 retrocopy	retro_brap_7,
Prunus persica	PRUPE_ppa008063mg	1 retrocopy	retro_pper_7 ,
Solanum lycopersicum	Solyc01g080210.2	1 retrocopy	retro_slyc_6,
Theobroma cacao	TCM_020494	1 retrocopy	retro_tcac_4,
Vitis vinifera	VIT_05s0020g02560	1 retrocopy	retro_vvin_20,