RetrogeneDB ID: retro_pper_17

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_8:20593144..20594611(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa004856mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa004718mg
• Aliases: None
• Description: None

Sequence

>retro_pper_17
ATGGATCTTGGGAAAACGACAAGAGGGGCTGTATTGGGTCGTATACTGGTTCTTTTCACATTGGTTCTGGATGCGTCAGG
TGACTTTGTGTTCCCTGTGCACCATAAGTTCAAGGGCCAGCGGTCTTTGAGTGCATTGAAAGCCCATGATGCTCGCCGCC
ATGGTAGAATTCTAGCCTCTGCAGGCTCAGGCTCTACTTCTGCTGTGGATCTGGAAATAGGCGGCAATGGCCATCCTTCT
GACACTGGCCTCTACTTTGCCAAACTTGGGATTGGCTCACCTTCAAAGGACTATTTTGTCCAGGTCGATACAGGAAGTGA
CATTTTATGGGTCAATTGTATTGGCTGCACAAACTGTCCCAAGAAAAGTGATATTGGTGTGAAGCTCACATTGTATGATC
CAAAGAGCTCTTCAACGTCACAAACTGTTACTTGTGATCAAGACTTTTGCACAGACAAATACAGTGGTCAGCTCCCTGGT
TGCAGGCCAACCTTGCTCTGCGAATATGATGTGACTTATGGAGATGGAAGCGCAACAGCTGGTTACTTTGTGAAGGACAA
TATTGAATTTGATGAAAGAACAAATGGAAGTATGGTATTTGGTTGTGGAGATAAACAATCTGGGCAGCTAGGTAAGTCTT
CTGAAGCACTTGATGGGATACTTGGTTTTGGGCAGGCAAATTCATCTGTGATTTCGCAGCTGGCTGCATCTGGAAAGGTC
AGAAAACAATTTGCACATTGCCTGGACAATGTAAACGGAGGTGGGATTTTTGCCATTGGGGAAGTGGTGCAGCCAAAAGT
GAAGAATACAACTCCATTGGTGCCAAGGCAGGCACATTACAATGTTGCGATGGAGGCAGTTGAGGTGGGTGGCAATGTGG
TAGAACAACTTCCCACAGGTATATTTGACACTGGAGACAAGGAAGGGACAATAATTGACAGTGGTACAACCTTGGCTTAT
CTTCCAGAGGAGGTTTATCAACCAGTCATGAGCAAGATCTTTGCAAGTCAGCCTGACTTGAAATTACATACAGTTGATGA
GCAGTTCAAATGTTTCCAGTATTCCAAGAGTGTCGATGATGGATTTCCAGTGGTGAAGTTCCATTTCAAGAATTCGGCTT
CAATGACGGTGTATCCTCATGACTATTTGTTCCAGTTGAAGGATGATGTTTGGTGCTCTGGTTGGCAGAGCAGTGGGATG
AAATCCGGAAATGGAGATTCCCTGACCCTTCTGGGAGATTTGGTGCTTTCAAATAAGCTAGTCATTTATGATCTTGAGAA
TCAGGAAATTGGGTGGTTGGATTACAACTGCTCTTCAAGCATCAAAGTGAGAGATGAGAAGTCAGGGGGAATTGTCACTA
TTGGTGCCCACAATCTTTCTTCAGCTTCCACTTTAACAATTGGAAGATTATTGAAATTCTTGTTATTAATAAGTTCTGTG
CTGCTGCAAATATCTTCTTTGTATTAG

Alignment

ORF - retro_pper_17 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.86 %
• Parental protein coverage: 58.3 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  TNGTVIFGCGAKQSGNLGKSPAAVDGILGFGQANASIISQLASSGKVKRQFSHCLDNVKGGGIYAIGEVV
          TNG...FGCG.KQSG.LGKS..A.DGILGFGQAN.S.ISQLA.SGKV..QF.HCLDNV.GGGI.AIGEVV
Retrocopy TNGSMVFGCGDKQSGQLGKSSEALDGILGFGQANSSVISQLAASGKVRKQFAHCLDNVNGGGIFAIGEVV

Parental  EPKVKNTTPLLPNMPHYTVSMKTIEVGGDAIE-LTTDIFGLFGDRKSAVIDSGTTLAYLTPEVFEPFIKK
          .PKVKNTTPL.P...HY.V.M...EVGG...E.L.T.IF...GD.....IDSGTTLAYL..EV..P...K
Retrocopy QPKVKNTTPLVPRQAHYNVAMEAVEVGGNVVEQLPTGIFDT-GDKEGTIIDSGTTLAYLPEEVYQPVMSK

Parental  IFARQSGLKLHTVEEQFTCFEYTEKVDDGFPIVKFGFKSSASLTVYPHDYLFQLRDNVWCSGWQSNSMKS
          IFA.Q..LKLHTV.EQF.CF.Y...VDDGFP.VKF.FK.SAS.TVYPHDYLFQL.D.VWCSGWQS..MKS
Retrocopy IFASQPDLKLHTVDEQFKCFQYSKSVDDGFPVVKFHFKNSASMTVYPHDYLFQLKDDVWCSGWQSSGMKS

Parental  KDGKSLTLLGDLVLSNKLVLYDLENQAIGWTDYNCTSSIKLKDDKSGQVYSVGAHNLYSASSRIMGTLLT
          ..G.SLTLLGDLVLSNKLV.YDLENQ.IGW.DYNC.SSIK..D.KSG.....GAHNL.SAS....G.LL.
Retrocopy GNGDSLTLLGDLVLSNKLVIYDLENQEIGWLDYNCSSSIKVRDEKSGGIVTIGAHNLSSASTLTIGRLLK

Parental  FLLLVIAML
          FLLL....L
Retrocopy FLLLISSVL

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_17 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_ppa004718mg	1 retrocopy	retro_pper_17 ,