RetrogeneDB ID: retro_pper_34

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_7:11900065..11901397(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa005800mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa019777mg
• Aliases: None
• Description: None

Sequence

>retro_pper_34
ATGAGGTCTTCATATACCTTGGGGTCACAGTCTAGGTGCCCTCTTGAAGAACGGCTTCTTCAGAAAAAGAATTCTCGGGA
AAATTTGGACAGGTTCATACCAAATAGGTCTGCAATGGATTTTGATTTTGCTCATTACATGCTTACTCAAGGTAGGAAAG
GTAAGGAAAACCCATCTAGATATGGAAGAGACTATAGGAAGCAGTTGGCAGAGGCTATGAACATGAATCGCACTAGAATC
CTCGCTTTCAAGAACAAGCCTCCTGCCCCTGTAGAGCTTTTCCCGAGCTACTTCTCTTCTTTGCCACAGGATAAACCGGC
AAACCCTAAGCCACACAGACACATTCCTCAAACTTCAGAGAGAACACTGGATGCTCCTGACCTTATTGATGATTACTACC
TGAATTTGTTGGATTGGGGAAGCTCCAATGTTATTGCAATAGCTCTTGCAAACACAGTTTATTTGTGGGATGCTACTGAT
TGTTCTACTTCGGAACTGGCCAGATTTGATGTTGAAAGGGGACCTGTTACCAGTGTCAGTTGGGCTATTGATGGACGCCA
CATTGCCATTGGACTGGACAATTCCGAAGTACAGCTATGGGATTCAACTGCAAAGCAGTATCTGAGAACCTTGAGAGGTT
GTCACAGATCACGGGTAGGCTCACTAGCATGGAACAATCACATTCTTACAACTGGAGGAATGGATGGCCGCATTGTAAAC
AATGATGTAAGAATTAGATCGCACATTGTTGAGACGTACAGAGGACATGAACGCGAGGTTTGTCGGCTTAAGTGGTCAGC
CTCAGGGCAGCAATTAGCAAGTGGAGGAAATGATAACCTGCTCCATATATGGGACAACAGATCAGTGGCACCAACACAGT
GGCTTCACAGGCTTGAAGACCATACAGCTGCTGTAAAAGCCCTTGCTTGGTGTCCTTTCCAGAGAAATTTGCTTGCTTCT
GGTGGAGGTGGGAATGATCGGTGCATAAAGTTCTGGAACACTCACACAGGTGCTTGCCTGAACTCGGTGGACACTGGCTC
TCAGGTTTGTGCTTTGCTGTGGAATATGAATGAACGAGAACTGCTTAGCTCACATGGGTTTACTCAGAATCAGCTTACTC
TTTGGAAATATCCATCAATGGTTAGAATTGCAGAACTCACGGGTCATACGTCTAGAGTCCTTCATATGGCTCAGAGCCCA
AATGGTTGCACAGTAGCATCAGCAGGTGGTGAAACACTGAAATTATGGAATGTTTTTGGGGACCCTGAGGAGGTTAAACC
AGCTCCACGACCTCCCAAAGAGCCTTTTGCCCAAGTGAGTCGTATCCGCTGA

Alignment

ORF - retro_pper_34 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 83.63 %
• Parental protein coverage: 98.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSSSSILKSDSRCPLREPFLQKRNSRENLDRFIPNRSAMDFDFAHFMLTEGRKGKENPAMVSSPSREAYR
          M.SS..L.S.SRCPL.E..LQK.NSRENLDRFIPNRSAMDFDFAH.MLT....G.......S...R..YR
Retrocopy MRSSYTLGSQSRCPLEERLLQKKNSRENLDRFIPNRSAMDFDFAHYMLTQ---GRKGKENPSRYGRD-YR

Parental  KQLAEAMNMNRTRILAFKNKPPAPVELFPREFSSLPQDKPA--KPRRHIPQTSERTLDAPDLVDDYYLNL
          KQLAEAMNMNRTRILAFKNKPPAPVELFP..FSSLPQDKPA..KP.RHIPQTSERTLDAPDL.DDYYLNL
Retrocopy KQLAEAMNMNRTRILAFKNKPPAPVELFPSYFSSLPQDKPANPKPHRHIPQTSERTLDAPDLIDDYYLNL

Parental  LDWGSCNVLAIALANTVYLWDATNGSTSELATFEDEVGPVTSVSWAPDGRHIAIGLDNSEVQLWDSTANK
          LDWGS.NV.AIALANTVYLWDAT..STSELA.F..E.GPVTSVSWA.DGRHIAIGLDNSEVQLWDSTA..
Retrocopy LDWGSSNVIAIALANTVYLWDATDCSTSELARFDVERGPVTSVSWAIDGRHIAIGLDNSEVQLWDSTAKQ

Parental  QLRTLRGCHRSRVGSLAWNNHILTTGGMDGCIVNNDVRVRSHIVETYRGHEQEVCGLKWSASGQQLASGG
          .LRTLRGCHRSRVGSLAWNNHILTTGGMDG.IVNNDVR.RSHIVETYRGHE.EVC.LKWSASGQQLASGG
Retrocopy YLRTLRGCHRSRVGSLAWNNHILTTGGMDGRIVNNDVRIRSHIVETYRGHEREVCRLKWSASGQQLASGG

Parental  NDNLLHIWD-RSVASSNSPTQWLHRLEDHTAAVKALAWCPFQGNLLASGGGGGDRCIKFWNTHTGACLNS
          NDNLLHIWD.RSVA....PTQWLHRLEDHTAAVKALAWCPFQ.NLLASGGGG.DRCIKFWNTHTGACLNS
Retrocopy NDNLLHIWDNRSVA----PTQWLHRLEDHTAAVKALAWCPFQRNLLASGGGGNDRCIKFWNTHTGACLNS

Parental  VDTGSQVCALLWNKNERELLSSHGFTQNQLTLWKYPSMAKIAELTGHTSRVLYMAQSPDGCTVASAAGDE
          VDTGSQVCALLWN.NERELLSSHGFTQNQLTLWKYPSM..IAELTGHTSRVL.MAQSP.GCTVASA.G.E
Retrocopy VDTGSQVCALLWNMNERELLSSHGFTQNQLTLWKYPSMVRIAELTGHTSRVLHMAQSPNGCTVASAGG-E

Parental  TLRFWNVFGVPEVAKPAPKSNPEPFAHLNRIR
          TL..WNVFG.PE..KPAP....EPFA...RIR
Retrocopy TLKLWNVFGDPEEVKPAPRPPKEPFAQVSRIR

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_34 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.

---

Parental genes homology:

Parental genes homology involve 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Arabidopsis lyrata	fgenesh2_kg.7__793__AT4G33270.1	1 retrocopy	retro_alyr_4,
Prunus persica	PRUPE_ppa019777mg	1 retrocopy	retro_pper_34 ,