RetrogeneDB ID: retro_pper_65

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_6:2485496..2486945(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa025679mg
• Aliases: None
• Description: None

Sequence

>retro_pper_65
TCTATTGAAGAACATCTGGCCCATATGAGCGAAGCGGTCACGAAATTGACGAAGATGGTCGAAGAGAAGGATGTGCAGAT
TGCTTCTCTCATTAACAAGTGGGAGACACATCAAGATAAGGAACCTAGTCAAGACGTGCATAAGAAAGAATCACATCATG
AAGCTGAATCCAGGGAGAAAGGATTGGGTCATGAAACAGAGTCGGGTGATAAGTCGCACGGAAAAGGCAACACAGCCTCG
GTGGATTCTTTATCTATCCAACAACTTCAGGACATGATCACGAACACCATCAGGGCTCAATATGGTGGGCCTTCTCAAGA
TACATTTATCTATTCCAAGCTCTACACCAAAAGGTTAGACAACCTTCAAATGCCAACGGGCTATCAACCTCTAAAGTTCA
TGCAGTTTGATGGAAAAGGTAACCCTAAACAACATGTTGCCCACTTCATCGAGATGTGCAACAGCGCTGGCACTAACGAC
GATTATCTTGTGAAGCAATTTGTCCAATCACTCCGAGGCACTGCATTCAACTGGTACATTGACTTGAAACCTGAGTCAAT
TGACAGCTGGGAACAAATGGAGAGAGAATTCCTCAACTGCTTCTATAGCACTTGTCGCTTAGTTAGCATGCTAGAGCTCA
CTAGCACAAAGCAGCGAAAAGACGAACCTGTTGTTGACTACATCAATCGTTGGTGTTCATTAAGCCTCGACTGCAAAGAT
CGAGTCTCAGAGTTATCGGCTGTAGAGATGTGCATTCAAGGTATGCATTGGGGTCTGCCCTACATTCTTCAAGGGATCAA
ACCCCGTACCTTTGAAGAATTGACCACTCGTGCGCATAACATAGAGCTAAGTATCACTAATCACGATGGAAGAAAGGAAA
TGGTGAGTGATCATCGAAATGATAAGTCGTCGAAAAATGGGGCAGACTCTTTGAGGACACGCATCTTGGAGTCAATGACG
ATCAGTGCTACTCCAATGAAGATTTCCACTCGAGGCAAGAAAGATGCGAGGAAGGCCGAGTCGACTCAAGATCAAGAACC
ACGACGACACACCCTAAAAGAAATGAAGGAGAAGAAGTATCCTTTTCCAGACTCTATCGTAGAAGGCATGCTGGAAGACT
TACTTGAGAAGAAGGTGATTGAGTTACCTGAGTGCAAACGCCCTGAAGAGATGAATCATATTAACCACCCGAAATACTGC
ATGTACCATCGTGTCATCAATCATCCAGTGGAAAAGTGCTTCGTGTTGAAAGATCTCATCATGAAGTTGGCACAACAAGG
AAGAATCGAAATGGATCTTGACAAGGTGGTAGAGTCTAACCATGCTACGATCTCGTTTGTCTTATCTGGTTCGGCACATT
CGCCCTCACTTCAATCACTGGGAGCATTCTCTGAAACCCATCAACTCAATCTGTATGAGTGTGTTGGGGTGAAAAGTCAA
AGTAGTGTC

Alignment

ORF - retro_pper_65 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.98 %
• Parental protein coverage: 91.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SIEEQLAHMSEAVTKLMKMVEEKDVQIASLINKWETHQDKEPSEDVHKKESHHEAESSEKGLGHETESGD
          SIEE.LAHMSEAVTKL.KMVEEKDVQIASLINKWETHQDKEPS.DVHKKESHHEAES.EKGLGHETESGD
Retrocopy SIEEHLAHMSEAVTKLTKMVEEKDVQIASLINKWETHQDKEPSQDVHKKESHHEAESREKGLGHETESGD

Parental  KSHGKGNTASVGSLSIQQLQDMITNTIRAQYGGPSQDTFIYSKPYTKRLDNLRMPTGYQPLKFMQFDGKG
          KSHGKGNTASV.SLSIQQLQDMITNTIRAQYGGPSQDTFIYSK.YTKRLDNL.MPTGYQPLKFMQFDGKG
Retrocopy KSHGKGNTASVDSLSIQQLQDMITNTIRAQYGGPSQDTFIYSKLYTKRLDNLQMPTGYQPLKFMQFDGKG

Parental  NPKQHVAHFIEMCNSVGTNDDYLVKQFVRSLRGTAFNWYIDLEPESIDSWEQMEREFLNRFYITRRSVSM
          NPKQHVAHFIEMCNS.GTNDDYLVKQFV.SLRGTAFNWYIDL.PESIDSWEQMEREFLN.FY.T.R.VSM
Retrocopy NPKQHVAHFIEMCNSAGTNDDYLVKQFVQSLRGTAFNWYIDLKPESIDSWEQMEREFLNCFYSTCRLVSM

Parental  IELSSTKQRKDKPVVDYINRWRSLSLDCKDRVSKLSAVEMCIQGMHWGLLYILQGIKPRTFEELTTRAHD
          .EL.STKQRKD.PVVDYINRW.SLSLDCKDRVS.LSAVEMCIQGMHWGL.YILQGIKPRTFEELTTRAH.
Retrocopy LELTSTKQRKDEPVVDYINRWCSLSLDCKDRVSELSAVEMCIQGMHWGLPYILQGIKPRTFEELTTRAHN

Parental  IELSIANHDGRKEMVSGHRNDKSSRNGADSLRTRILESMTISATPMKISTRGKKDARKAESTQDQEPRGY
          IELSI.NHDGRKEMVS.HRNDKSS.NGADSLRTRILESMTISATPMKISTRGKKDARKAESTQDQEPR..
Retrocopy IELSITNHDGRKEMVSDHRNDKSSKNGADSLRTRILESMTISATPMKISTRGKKDARKAESTQDQEPRRH

Parental  TLKEMKEKKYPFPDSDIEGMLEDLLEKKVIELPECKRPEEMNHINHPKYCMYHHVISHPVEKCFVLKDLI
          TLKEMKEKKYPFPDS..EGMLEDLLEKKVIELPECKRPEEMNHINHPKYCMYH.VI.HPVEKCFVLKDLI
Retrocopy TLKEMKEKKYPFPDSIVEGMLEDLLEKKVIELPECKRPEEMNHINHPKYCMYHRVINHPVEKCFVLKDLI

Parental  MKLAQQGRIEMDLDKVVESSHATISM---GIGYSEEVTYECTFAKNSSIKKIYELLKQRSPSPI
          MKLAQQGRIEMDLDKVVES.HATIS....G...S........F.........YE.....S.S..
Retrocopy MKLAQQGRIEMDLDKVVESNHATISFVLSGSAHSPSLQSLGAFSETHQL-NLYECVGVKSQSSV

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_65 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_ppa025679mg	1 retrocopy	retro_pper_65 ,