RetrogeneDB ID: retro_pper_46

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_8:21170437..21171958(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa004508mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa004866mg
• Aliases: None
• Description: None

Sequence

>retro_pper_46
ATGAGTGGTGGTGAAACCGAAGGGGAGACGTTAGAGTACACGCCGACATGGATTGTGGCAGCAGTGTGCACTGTGATCGT
CGCCATTTCTCTGGCAGTCGAGCGCCTCCTCCACTACGGAGGCAAGTACTTGAAGAAGAAGAACCAGAAGCCTCTCTTCG
AAGCCTTGCAGAAAATTAAAGAGGAGCTTATGCTGTTGGGCTTCATCTCTCTGCTCCTCACTGTCTTCCAAAACGTCATC
TCCAAAATCTGCGTCGCCCACCAAGTAATGGAGCATCTGCTGCCATGCAAACTCCCCAGTGAGGAAGAAGCAGCAAAACC
CACTTCCCATTTCGGAAGGAGGAAGCTTTTCGCCGAGGAATCGTTTGAGATGCAGATCGGTTACTGTGCCAAAAAGCATA
AGGTACCGTTGTTATCTGTTGAAGCTTTGCATCATCTGCATATCTTTATCTTCGTCCTAGCCATTGTCCATGTGACCTTC
TGTGTTCTCACTGTTGTCTTCGGAGGGATTAAAATTCGTCAATGGAAATCTTGGGAGGATTCGATCGCAAAGGAAAATTA
TGATTCAGAACAAGTTCTCAAGAAGAAGAAAAAGGTTACCCATGTCAACCAACACGCTTTTATCAAAGCCCATTTTCTGG
GTATGGGTAAAAATTCAGCCTTTCTGGGTTGGGTAGATTCTTTTGTGAAACAATTTTATGCATCTGTGACGAAATCAGAT
TATGTGACTTTGCGACTGGGTTTCATCACAACCCATTGCAGGGGAAACCCCAAATTTGATTTTCACAAATACATGATTAG
AGCCCTTGAAGATGATTTTAAGAAAGTGGTTGGTATAAGTTGGTATCTCTGGGTATTTGTGGTCATCTTCTTGCTGATGA
ATATTAATGGCTGGCATACATATTTCTGGATAGCTTTTGCTCCCTTCGTTCTTCTGCTTGCTGTGGGAACTAAGCTGGAG
CATATAATTACCCAATTGGCACATGAGGTTGCTGAGAAACATGTAGCCATAGAAGGGGATCTCGTGGTTCAGCCATCAGA
TGACCACTTTTGGTTCGGCAAACCCAAAATTGTCCTCTTCTTGATCCATTTCATCCTCTTCCAAAATGCTTTCGAAATCG
CCTTCTTTTTCTGGATTTGGCTGCAGTATGGTTTCGACTCGTGCATAATGGGACAAGTGCGTTACATTGTCCCTAGGCTT
ATTATTGGGGTGTTCATTCAGGTGCTCTGTAGTTACAGCACCCTGCCACTCTACGCCATTGTGGCACAGATGGGGACTAA
TTTCAAGGCGGCAATATTTAATGAGCATGTTCAAGTAGGGCTTGTTGGTTGGGCTCAGAAGGTTAAGAAGAAGAAGGCGC
TGGAAGCTGCCAACGATGCCTCTGGCTCTGGCTCTGGCTCTGGACAAGGCCAAGCAAGTTCCCATGGTGGTGGTCTTGCT
TCTAATATGGGAATTCAGCTGGGAAAATTTATCAAGCCAACTAAGCAGGAGGAAACTAAGCAGGATGAGGAGACTAAGTA
A

Alignment

ORF - retro_pper_46 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 73.28 %
• Parental protein coverage: 70.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  EAQQGYCGKKHKVPLLSVEAFHHLHIFIFVLAIVHVTFCALTIVFGGLKIHQWKKWEDEHSKEINEADEV
          E.Q.GYC.KKHKVPLLSVEA.HHLHIFIFVLAIVHVTFC.LT.VFGG.KI.QWK.WED...KE......V
Retrocopy EMQIGYCAKKHKVPLLSVEALHHLHIFIFVLAIVHVTFCVLTVVFGGIKIRQWKSWEDSIAKENYDSEQV

Parental  ---QVKITHVQEHDFVKDHFWGIGKNYYLMGCLHSFLNQFYGSVTRSDYLTLRLGFITTHCRGNPKFNFH
          .....K.THV..H.F.K.HF.G.GKN....G...SF..QFY.SVT.SDY.TLRLGFITTHCRGNPKF.FH
Retrocopy LKKKKKVTHVNQHAFIKAHFLGMGKNSAFLGWVDSFVKQFYASVTKSDYVTLRLGFITTHCRGNPKFDFH

Parental  TYMVRALEDDFKRVVGISWYLWIFVVLFMLMNVDGWHAYFWIAFVPFFLLLAVGAKLQHVITQLAHEVAE
          .YM.RALEDDFK.VVGISWYLW.FVV.F.LMN..GWH.YFWIAF.PF.LLLAVG.KL.H.ITQLAHEVAE
Retrocopy KYMIRALEDDFKKVVGISWYLWVFVVIFLLMNINGWHTYFWIAFAPFVLLLAVGTKLEHIITQLAHEVAE

Parental  KHIAVEGELIVQPSDEHFWFGKPKFVLFLIHFILFQNAFEMAFFFWIWVQYGFTSCIMGKVKYIIPRIVI
          KH.A.EG.L.VQPSD.HFWFGKPK.VLFLIHFILFQNAFE.AFFFWIW.QYGF.SCIMG.V.YI.PR..I
Retrocopy KHVAIEGDLVVQPSDDHFWFGKPKIVLFLIHFILFQNAFEIAFFFWIWLQYGFDSCIMGQVRYIVPRLII

Parental  GLFIQVLCSYSTLPLYAIVTQMGTNFKKAIFDEDVRLGLVGWAKKAKRRKA---SMDGSSSGIGSDVG
          G.FIQVLCSYSTLPLYAIV.QMGTNFK.AIF.E.V..GLVGWA.K.K..KA.....D.S.SG.GS..G
Retrocopy GVFIQVLCSYSTLPLYAIVAQMGTNFKAAIFNEHVQVGLVGWAQKVKKKKALEAANDASGSGSGSGQG

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_46 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_ppa004866mg	1 retrocopy	retro_pper_46 ,