RetrogeneDB ID: retro_pper_19

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_5:7759499..7760801(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa1027197mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa001948mg
• Aliases: None
• Description: None

Sequence

>retro_pper_19
AAAGTTAGCGCTGAAGTTAAAACCCTAGTCCAACAGGCTGAATATGCAGCAAACAACCAGGCTTCTGATAGAGCTTCTGG
CATGCTGGAACAGGTCCTTGTCACAAAAATGATCGAGCTTCATGATAAGTATATGGCACATTTCGAAGATTTCTTAATAA
AAAACCATATCTTTCACAAGGCTCTGAGAGAGGCCTTTGATGGATTTTGCAATAAATCTGTTTCCGGGAATTCAAGTGCT
CAATTACTCGCTGCATTCTGTGATGATATCCTCAAAAAGGGTGGGAGCCAGAAGTTGAGCGATGAGGCCATAGAAGGAAT
GCTTGAAAAGGTTGTTAACTTGCTTGCTTATATAAGTGACAAAGACCTTTTTGCAGAATTCTACAGGAAAAAACTCTCTC
ACCGGCTACTTTTTGATCAAAGTGCCAACAAGGAACATGAAACAAGTATTCTAACAAAGATGAAACAGCAATTTGGTGGA
CAGTTCACCTCAAAGATGGAGGGAATGGTCACAGATTTGACATTGGCTCGGGACAATCAGACCGGCTTTGAGGAGTATCT
TCACAGTAACCCAAATGTAAATCCTGGGATGGATTTGACCGTCACCGTTCTTACAACTGGTTTCTGGCCAAGTTATAAAT
CATGTGATCTTAGCCTTCCTGCAGAGATGGTGAAATGTGTTGAAGTCTTCAAGGGATTCTATGAAACGAAGACGAAATGC
AGAAAAATTAAATGGATTTACTCATTGGGCACTTGCAACATTATTGGCAGGTTTGAGCCAAAAGAAATCGAATTGGTTGT
TTCAACCTATCAGGCTGCTATCCTGCTACTTTTCAATACCGCTGATAAATTGAGCTATTCAGAAATACTAGGTAAGTTAA
ACCTTACCCATGACGCAGCTGTTCGAATCCTTCATTCGCTTTCATGTGCCAAGTACAAGATCTTTATTAAGGAGCCTAAT
GCAAAGACTATCTCGCCAAATGACAACTTTGAGTTCAATTCCAAATTCACTGACAGAATGAGAAGAATTAAGATTCCTCT
CCCACCAGTGGATGAAAGGAAGGAGGTGATCCAAGATGTTGACAGATTCAGGCGATATGCTATTGATGCTGCAATCGTGC
GGATTATGAAGAGTCGGAAGGTTTTGGGTCATCAGCAATTAGTTATGGAGTGTGTTGAGCAGTTAAGACATAAATTCAAG
CCTGACATGAGAGCAATTAAGAAGCAGATTGAAGATCTCATCGTCCGTGACTACCTGGAGAGGGACAAGGAAAATCATAA
CATGTTCAAGTATCTTGCATGA

Alignment

ORF - retro_pper_19 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.79 %
• Parental protein coverage: 58.4 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VTAEGTALVQQAEDVASNQTSSGA-GTQEQVLVRKIIELHDKYMAYVTDCFLNHTLFHKALKEAFEVFCN
          V.AE...LVQQAE..A.NQ.S..A.G..EQVLV.K.IELHDKYMA...D.......FHKAL.EAF..FCN
Retrocopy VSAEVKTLVQQAEYAANNQASDRASGMLEQVLVTKMIELHDKYMAHFEDFLIKNHIFHKALREAFDGFCN

Parental  KAVSGSSSAELLAGFCDNILKKGGSEKLSDEAIEETLEKVVKLLAYISDKDLFAEFYRKKLARRLLFDRS
          K.VSG.SSA.LLA.FCD.ILKKGGS.KLSDEAIE..LEKVV.LLAYISDKDLFAEFYRKKL..RLLFD.S
Retrocopy KSVSGNSSAQLLAAFCDDILKKGGSQKLSDEAIEGMLEKVVNLLAYISDKDLFAEFYRKKLSHRLLFDQS

Parental  ANEDHEKSILTKLKQQCGGQFTSKMEGMVTDLTLARDNQANFEEYLHNNPDVNPGMDLTVTVLTTGYWPS
          AN..HE.SILTK.KQQ.GGQFTSKMEGMVTDLTLARDNQ..FEEYLH.NP.VNPGMDLTVTVLTTG.WPS
Retrocopy ANKEHETSILTKMKQQFGGQFTSKMEGMVTDLTLARDNQTGFEEYLHSNPNVNPGMDLTVTVLTTGFWPS

Parental  YKSFDLNLPEEMVKCVEVFKGFYETKTKHRKLTWIYSLGTCNVNGKFEPKNIELVVSTYQAALLLLFNTA
          YKS.DL.LP.EMVKCVEVFKGFYETKTK.RK..WIYSLGTCN..G.FEPK.IELVVSTYQAA.LLLFNTA
Retrocopy YKSCDLSLPAEMVKCVEVFKGFYETKTKCRKIKWIYSLGTCNIIGRFEPKEIELVVSTYQAAILLLFNTA

Parental  DKLNYSEILTQLNLTHDDLVRLLHSLSCAKYKILIKEPNTKTISPTDSFEFNSKFTDRMRRIKIPLPPVD
          DKL.YSEIL..LNLTHD..VR.LHSLSCAKYKI.IKEPN.KTISP.D.FEFNSKFTDRMRRIKIPLPPVD
Retrocopy DKLSYSEILGKLNLTHDAAVRILHSLSCAKYKIFIKEPNAKTISPNDNFEFNSKFTDRMRRIKIPLPPVD

Parental  ERKKVIEDVDKDRRYAIDAAIVRIMKSRKVLGHQQLVMECVEQLGRMFKPDIKAIKKRIEDLITRDYLER
          ERK.VI.DVD..RRYAIDAAIVRIMKSRKVLGHQQLVMECVEQL...FKPD..AIKK.IEDLI.RDYLER
Retrocopy ERKEVIQDVDRFRRYAIDAAIVRIMKSRKVLGHQQLVMECVEQLRHKFKPDMRAIKKQIEDLIVRDYLER

Parental  DKENPNMFKYLA
          DKEN.NMFKYLA
Retrocopy DKENHNMFKYLA

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_19 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Brassica oleracea	Bo01031s010	1 retrocopy	retro_bole_8,
Prunus persica	PRUPE_ppa001948mg	1 retrocopy	retro_pper_19 ,
Theobroma cacao	TCM_004565	1 retrocopy	retro_tcac_22,