RetrogeneDB ID: retro_pper_30

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_6:2491343..2492294(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa021421mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa007426mg
• Aliases: None
• Description: None

Sequence

>retro_pper_30
ATGGCGATGAAGGAGCTGAAGAAATCTTCTGTAATTCGCCTCAATGTGGGAGGAAACAAATTTTGCACAAGTGTTGATAC
TCTAACTCAGCGTGAGCCTAACTCAATGCTTGCTGCAATGTTTAGTGGACGCCATAATATTGCGTGTGAAGAAGACTGTG
AAAAGGGGTGTGTTTTTATTGACAGGGATGGCACACATTTTCGGCACATCCTTAATTGGTTAAGGGATGCTACTGTTCCT
TTGTTAGAAGAGCGTTGTAAATATTCAGAGCTTTTGAGAGAGGCAGAATATTTTCAACTAGTTGGTCTAACAGAGGAAAT
ACATGCTTTTCTAAACAAGGAGGACGACGATCAAATTGCAAAGTTGGATGCAGATTTTACGCGCAGGGATATCATCAACT
TTATACTATCTAATGCTACAATGAAGTTTAGAGGTTTCAATCTCTCTGGCCTTGATCTTTCGAAACTAGACTTGACGAAG
ATAGATTTCAGTTATGCATGCCTGAGAAATGTTTGTTTCTCAGGTTGTGATCTTACACGCGTAAAATTTAATTATGTGGA
TGCCGAGGGTGCCATCTTTAACAATGCTAGTTTGACAAGTACTGAATTTGTAGGAGCAAATCTCCGTGACGCTTCGTTTG
TTGATGCCAAGCTTCGCTTTGCAAAGATAAAAAGTGCATGCTTGGTAAATTGTAGCTTTTTGAGAGCAATCTTGTATAAT
GCACACCTTTATGACGCTGATCTTACAAATGCAAATTTTGAAGCGGCTAGTCTGGAATGTGCAGCCTTGAAAAATCTCAA
GGCCACGAATACTGCAAATTTTAGGGATGCATATCTTATAAGTTCTGGCGTAGAAGATGTGAATTTGCAACATTTGGTGG
GTGCAAAGCTTGGCGTTGTTACAGCCTGCGGTAATGGGTTTATATGTAAGAAACCAGACGAAATTCGTTGA

Alignment

ORF - retro_pper_30 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 60.48 %
• Parental protein coverage: 77.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SSLIRLNIGGTKFCTTIDTLTQREPDSMLAAMFSGRHTLC--QDPEKGYVFLDRDGKHFRHILNWLRDGV
          SS.IRLN.GG.KFCT..DTLTQREP.SMLAAMFSGRH......D.EKG.VF.DRDG.HFRHILNWLRD..
Retrocopy SSVIRLNVGGNKFCTSVDTLTQREPNSMLAAMFSGRHNIACEEDCEKGCVFIDRDGTHFRHILNWLRDAT

Parental  VPTLKDS-KYTEVLREAEYYQLLGLIDGIHAILNKKKEDE--ELDTELTRTDIIKCIQSDR-VRFRGVNL
          VP.L....KY.E.LREAEY.QL.GL...IHA.LNK...D....LD...TR.DII..I.S.....FRG.NL
Retrocopy VPLLEERCKYSELLREAEYFQLVGLTEEIHAFLNKEDDDQIAKLDADFTRRDIINFILSNATMKFRGFNL

Parental  SGLDLSKLDLSFVDFSYACLRNVFFSRANLHCAKFKDVDAEGANFHNATLRECEFTGANLRGALLAGANL
          SGLDLSKLDL...DFSYACLRNV.FS...L...KF..VDAEGA.F.NA.L...EF.GANLR.A....A.L
Retrocopy SGLDLSKLDLTKIDFSYACLRNVCFSGCDLTRVKFNYVDAEGAIFNNASLTSTEFVGANLRDASFVDAKL

Parental  QSANLQDACLINSSFCQADLRSAHLQNADLTNANLEGAILEGANLKGAKLSNT-NLKDANLQRAYLRQVN
          ..A....ACL.N.SF..A.L..AHL..ADLTNAN.E.A.LE.A.LK..K..NT.N..DA.L.......VN
Retrocopy RFAKIKSACLVNCSFLRAILYNAHLYDADLTNANFEAASLECAALKNLKATNTANFRDAYLISSGVEDVN

Parental  LRDTHLEGAKL
          L...HL.GAKL
Retrocopy LQ--HLVGAKL

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_30 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_ppa007426mg	1 retrocopy	retro_pper_30 ,