RetrogeneDB ID: retro_pper_32

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_6:14656630..14659789(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa023487mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa000714mg
• Aliases: None
• Description: None

Sequence

>retro_pper_32
ATGGGGAGCGAGAGCAATCTGAATACATGGGTATCCGATAAGTTGATGACGTTGCTCGGATATTCTCAGCCTACTGTTGT
TCAGTACATTATTGGATTGACCAAACAGGCAAAATCACCGGCTGATGTTGTGGGCAAGCTTGTAGAATTAGAATTTGGGT
TGTCATCTTCGGCCGAAACAAGTGCATTTGCTGAAGACATCTTCGCAAGAGTGCCCCGTAAAGAATCTGGTTTGAATCTA
TATCAGAAACAAGAGAGGGAAGCTGCCATGTTGGTGAAGAAGCAGAAGACATATTCTCTCTTGGATGCAGATGACGAAGA
TGACAATGATGGCGATACATCTTCTGCCCAGGTTATTTCCAAGTCCAGGAAAGCTGATTCCCATAAGAAACGATTCAGGA
AGAAGGTCTTGAGTCAAGAAGATGAAGATGATGAGGTGATTGCACAAGAGGGACAAGTGAGACGAGTTAAAAGACGAACT
TGTTCCCCAGATGACGATGATGGTTCAGAGTCAGAAGAGGAAAGATTGCGTGATCAAAGAGAGAGGGAGCAATTGGAGCA
GAATATAAGGGAACGGGATACAGCAGCTACACGAAAGTTAACGGACAGAAAATTAACACGAAAGGAAGAAGAGGAGAATA
TTCGGAGAAGCAATGCATTGGAGCGGAATGACCTCGAAGATTTAAGAAAAGTTTCAAGACAAGAATATCTCAAAAAGAGG
GAGCAAAAGAAATTGGAGGAAATCAGAGACGATATAGAGGATGAGCAATACTTATTTGATGGCGTGAAGCTCACTGAAGC
AGAATATAGTGAACTAAGCTACAAGAAACAAATATACGAACTGGTGAAGAAGAGGTCAGATGAGGTTGAGGATATCACTG
AGTACAGGATGCCAGATGCGTATGATGAGGAGGGTGGTGTTAATCAGGAAAAGAGATTTTCTGTGGCTGTGCAACGATAC
AGGGACCTCAGTGCTGGGGATAAAATGAACCCATTTGCAGAACAGGAAGCTTGGGAGGATCACCAAATTGGAAAAGCAAC
GCTGAAATTTGGTTCAAAAAACAAAAAACAAAAATCTGATGAGTATCAATTTGTATTTGAGGATCAGATTGATTTTATCA
AGGCATCAGTGATGGATGGTGATGAGTTTGATGATGACAGGCAACCCTCTGAGTTACTTGGGTCGAAGGCGAAATCGGGC
TTAGAGAAGCTCCAGGATGACAGAAAAACACTACCCATCTACACCTACCGTGATAAATTGCTTGAAGCTGTTGAAAATCA
TCAAGTTCTGGTTATTGTTGGGGAAACTGGTTCTGGAAAAACTACGCAGATACCCCAATATCTTCATGAGGCTGGATACA
CAAAGCGTGGAAAGATTGGGTGCACACAGCCACGGCGAGTTGCTGCTATGAGTGTTGCTGCAAGGGTTTCTCAAGAAATG
GGGGTCAAACTTGGGCACGAGGTTGGTTATTCTATTCGTTTTGAGGATTGCACATCCGAAAAGACTGTTTTGAAATATAT
GACAGATGGAATGTTGTTGCGAGAATTCCTTGGTGAACCAGATCTGGCGAGTTACAGTGTGGTGATGGTGGACGAGGCCC
ATGAACGAACACTCTCAACTGATATTCTATTTGGACTAGTGAAGGATATTGCTCGATTTAGACCAGATCTCAAACTGCTT
ATCTCAAGTGCAACGCTTGATGCTGAGAAGTTCAGTGATTATTTTGATTCTGCTCCAATTTTCAAAATTCCAGGGAGGCG
GTATGCTGTTGATATCCATTACACGAAAGCACCAGAAGCCGATTACTTAGATGCAGCAATTGTCACTGCACTTCAAATCC
ATGTGACGCAACCACCTGGAGATATATTGGTATTCCTCACTGGTCAGGAAGAGATTGAAACAGCAGAAGAAATATTGAAG
CACAGAACAAGGGGCCTAGGGACAAAAATTGCTGAGCTGATTATTTGCCCCATATATGCAAACCTACCTACTGAGCTGCA
AGCAAAAATTTTTGAAGCCACACCTGATGGGGCAAGGAAGGTTGTCCTTGCCACAAATATAGCTGAAACTTCGTTGACCA
TTGATGGGATCAAATATGTTATTGACCCAGGGTTTTGCAAGATGAAGTCGTATAACCCAAGGACTGGAATGGAGTCATTG
CTAGTTACTCCCATCTCAAAGGCATCAGCAATGCAGAGGGCAGGTCGATCTGGTCGAACGGGTCCTGGAAAGTGCTTCCG
GTTATATACTGCCTACAATTATTACAATGATTTAGATGATAACACAGTACCAGAAGTACAAAGAACTAATCTTGCAAATG
TTGTGCTTACGCTGAAGAGCCTTGGTATTCATGACTTATTGCATTTTGATTTTATGGACCCTCCGCCATCTGAAGCGTTA
CTGAAAGCCCTGGAACTGTTATTTGCACTAAGTGCATTAAATAAAGTGGGTGAGTTGACTAAAGTGGGTAGAAGGATGGC
GGAGTTTCCTCTTGATCCCATGCTATCTAAGATGATAGTTGCTTCTGATCAGTACAAGTGTTCAGATGAAGTCATTTCCA
TTGCTGCCATGCTTTCCATTGGTAATTCCATCTTTTACCGTCCCAAGGACAAACAAGTCCATGCTGACAATGCTCGTTTG
AATTTTCACACCGGGAATGTGGGAGATCACATTGCATTGCTCAAGGTCTATAACTCATGGAAAGAGACCAACTTCTCAAC
CCAGTGGTGTTATGAAAACTATATACAGGTGAGGAGCATGAAGCGTGCTAGAGATATTAGAGACCAGCTTGAGGGACTCT
TGGAGAGGGTTGAGATTGAGCTGGTCTCAAATCTCAGTGATTACGAGACCATAAAGAAGGCCATTACATCTGGCTTCTTC
CCTCATTCCGCAAAGCTTCAAAAGAATGGATCTTATAGAACAGTCAAACATCCACAGACTGTTCATATACATCCCAGCTC
AGGGCTGTCACAGGTGCTTCCGAGATGGGTTATATACCATGAATTGGTACTTACAACCAAGGAATATATGAGACAGGTAA
CAGAATTAAAGCCGGAGTGGTTAGTGGAAATAGCTCCTCATTATTACCAGCTGAAGGATGTTGAAGATTCGATGTCAAAG
AAAATGCCCCGGGGAGAAGGGCGCCCACAACAGGATTGA

Alignment

ORF - retro_pper_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 98.92 %
• Parental protein coverage: 63.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EDDRKTLPIYTYRDQLLEAVENHQVLVIVGETGSGKTTQIPQYLHEAGYTKRGKIGCTQPRRVAAMSVAA
          .DDRKTLPIYTYRD.LLEAVENHQVLVIVGETGSGKTTQIPQYLHEAGYTKRGKIGCTQPRRVAAMSVAA
Retrocopy QDDRKTLPIYTYRDKLLEAVENHQVLVIVGETGSGKTTQIPQYLHEAGYTKRGKIGCTQPRRVAAMSVAA

Parental  RVSQEMGVKLGHEVGYSIRFEDCTSEKTVLKYMTDGMLLREFLGEPDLASYSVVMVDEAHERTLSTDILF
          RVSQEMGVKLGHEVGYSIRFEDCTSEKTVLKYMTDGMLLREFLGEPDLASYSVVMVDEAHERTLSTDILF
Retrocopy RVSQEMGVKLGHEVGYSIRFEDCTSEKTVLKYMTDGMLLREFLGEPDLASYSVVMVDEAHERTLSTDILF

Parental  GLVKDIARFRPDLKLLISSATLDAEKFSDYFDSAPIFKIPGRRYPVEIHYTKAPEADYLDAAIVTALQIH
          GLVKDIARFRPDLKLLISSATLDAEKFSDYFDSAPIFKIPGRRY.V.IHYTKAPEADYLDAAIVTALQIH
Retrocopy GLVKDIARFRPDLKLLISSATLDAEKFSDYFDSAPIFKIPGRRYAVDIHYTKAPEADYLDAAIVTALQIH

Parental  VTQPPGDILVFLTGQEEIETAEEILKHRTRGLGTKIAELIICPIYANLPTELQAKIFEATPDGARKVVLA
          VTQPPGDILVFLTGQEEIETAEEILKHRTRGLGTKIAELIICPIYANLPTELQAKIFEATPDGARKVVLA
Retrocopy VTQPPGDILVFLTGQEEIETAEEILKHRTRGLGTKIAELIICPIYANLPTELQAKIFEATPDGARKVVLA

Parental  TNIAETSLTIDGIKYVIDPGFCKMKSYNPRTGMESLLVTPISKASAMQRAGRSGRTGPGKCFRLYTAYNY
          TNIAETSLTIDGIKYVIDPGFCKMKSYNPRTGMESLLVTPISKASAMQRAGRSGRTGPGKCFRLYTAYNY
Retrocopy TNIAETSLTIDGIKYVIDPGFCKMKSYNPRTGMESLLVTPISKASAMQRAGRSGRTGPGKCFRLYTAYNY

Parental  YNDLDDNTVPEVQRTNLANVVLTLKSLGIHDLLHFDFMDPPPSEALLKALELLFALSALNKVGELTKVGR
          YNDLDDNTVPEVQRTNLANVVLTLKSLGIHDLLHFDFMDPPPSEALLKALELLFALSALNKVGELTKVGR
Retrocopy YNDLDDNTVPEVQRTNLANVVLTLKSLGIHDLLHFDFMDPPPSEALLKALELLFALSALNKVGELTKVGR

Parental  RMAEFPLDPMLSKMIVASDKYKCSDEVISIAAMLSIGNSIFYRPKDKQVHADNARLNFHTGNVGDHIALL
          RMAEFPLDPMLSKMIVASD.YKCSDEVISIAAMLSIGNSIFYRPKDKQVHADNARLNFHTGNVGDHIALL
Retrocopy RMAEFPLDPMLSKMIVASDQYKCSDEVISIAAMLSIGNSIFYRPKDKQVHADNARLNFHTGNVGDHIALL

Parental  KVYNSWKETNFSTQWCYENYIQVRSMKRARDIRDQLEGLLERVEIELVSNLSDYETIKKAITSGFFPHSA
          KVYNSWKETNFSTQWCYENYIQVRSMKRARDIRDQLEGLLERVEIELVSNLSDYETIKKAITSGFFPHSA
Retrocopy KVYNSWKETNFSTQWCYENYIQVRSMKRARDIRDQLEGLLERVEIELVSNLSDYETIKKAITSGFFPHSA

Parental  KLQKNGSYRTVKHPQTVHIHPSSGLSQVLPRWVIYHELVLTTKEYMRQVTELKPEWLVEIAPHYYQLKDV
          KLQKNGSYRTVKHPQTVHIHPSSGLSQVLPRWVIYHELVLTTKEYMRQVTELKPEWLVEIAPHYYQLKDV
Retrocopy KLQKNGSYRTVKHPQTVHIHPSSGLSQVLPRWVIYHELVLTTKEYMRQVTELKPEWLVEIAPHYYQLKDV

Parental  EDLMSKKMPRGEGRAQQD
          ED.MSKKMPRGEGR.QQD
Retrocopy EDSMSKKMPRGEGRPQQD

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_32 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 15 parental genes, and 15 retrocopies.

Species	Parental gene accession	Retrocopies number
Oryza sativa indica	BGIOSGA027162	1 retrocopy	retro_oind_65,
Brassica oleracea	Bo5g087070	1 retrocopy	retro_bole_7,
Brassica rapa	Bra010168	1 retrocopy	retro_brap_26,
Brachypodium distachyon	BRADI1G61220	1 retrocopy	retro_bdis_4,
Glycine max	GLYMA06G21821	1 retrocopy	retro_gmax_7,
Leersia perrieri	LPERR08G09260	1 retrocopy	retro_lper_14,
Hordeum vulgare	MLOC_5589	1 retrocopy	retro_hvul_14,
Oryza meridionalis	OMERI08G09070	1 retrocopy	retro_omer_5,
Oryza nivara	ONIVA08G11780	1 retrocopy	retro_oniv_26,
Oryza punctata	OPUNC08G10350	1 retrocopy	retro_opun_23,
Oryza glaberrima	ORGLA08G0098600	1 retrocopy	retro_ogla_26,
Oryza rufipogon	ORUFI08G12410	1 retrocopy	retro_oruf_44,
Prunus persica	PRUPE_ppa000714mg	1 retrocopy	retro_pper_32 ,
Sorghum bicolor	Sb04g022460	1 retrocopy	retro_sbic_37,
Setaria italica	Si021302m.g	1 retrocopy	retro_sita_41,