RetrogeneDB ID: retro_pper_18

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:2271525..2272797(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PRUPE_ppa006198mg
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa006193mg
• Aliases: None
• Description: None

Sequence

>retro_pper_18
ATGGCAGCTCGAAAGCGAGCTTCAACAGACTCGTCCGCACAAACCAAACCAAACGAGGCCACCAAACGACCCAAACCCAA
AGAACCTCCATTAACAGACCCGCCAATTGCACCCCCAAAGTCAGGTGTAATTCTCAAGCTCACGCTCTTCTTCTCAATCC
CATACTTTTACCTCATCTTCTATCACTGCAAGATCGAACATGAACTTCGAAAATCGATTCTCATCAATGCGGCTCTCAGC
CTTGCCGGGTTATTCGTCACCGTTAAGATGATCCCCGTGGCTTCCAGATACGTTCTCAGGCGCAACCTCTTTGGTTATGA
CATTAACAAAAAGGGTACACCGCAGGGCACTGTCAAAGTGCCTGAGTCATTGGGTATTGTTGTTGGAATTGTTTTCTTGG
TCTTGGGAATCCTATTCCAGTATTTCAACTTCACTGCAGATTCAAATTGGCTAGTCGAGTACAATGCAGCATTAGCATCC
ATATGCTTTATGGTATTGCTTGGATTTGTAGATGATGTTCTTGATGTACCTTGGAGGGTGAAATTACTACTGCCATCCAT
TGCAGCTCTACCTCTGCTGTTGGCCTATGCTGGACATACAACTATCATCATACCGAAGCCACTTATTCCACATGTTGGGC
TAGAGGTTTTGGATCTAGGATGGATGTACAAACTTTACATGGGCCTTTTGGCGGTTTTCTGTACAAACTCCATCAACATT
CATGCTGGCTTGAATGGTCTTGAAGTTGGGCAGACAGTCATCATTGCATCTGCTATTTTAATACACAATATCATGCAAAT
TGGAGCATCTGCAGATTCTGAGTATAAGATGGCACATGCATTCTCTCTTTATCTTGTCCAACCCTTATTAGCCACCTCGT
TGGCGTTGTTCTCTCACAACTGGTATCCTTCTTCAGCTTTTGTTGGAGATACATACACATACTTTGCTGGGATGACGATG
GCAGTAGCTGGGATTTTAGGCCATTTTAGTGAAACACTCCTGATTTTCTTTGTCCCTCAAGTATTGAACTTTCTCTTGTC
ACTGCCCCAGCTTGCCGGCATTGTTCCATGTCCACGGCATCGTCTTCCTAGGTTTGATCCTGGAACTGGACTGCTGACTG
GGACAAATGATGGGACGCTTGTAAACTTTTTTCTAAGACGATTTGGCAGGATGACGGAGAAGTCGATTTGCATCTGTCTT
CTAGTTTTCCAGGCCATCGCTTGCTGCTTCTGTTTCGTGCTGAGATTTTTCCTTGCTGGTTGGTACAAGTGA

Alignment

ORF - retro_pper_18 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 95.51 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MAARKRASKDSSAQTKPNDTTTRPKPQEPPLTDPPIAPPKLGVILKLTLFFSVPYFYLIFYHYKIEHELR
          MAARKRAS.DSSAQTKPN..T.RPKP.EPPLTDPPIAPPK.GVILKLTLFFS.PYFYLIFYH.KIEHELR
Retrocopy MAARKRASTDSSAQTKPNEATKRPKPKEPPLTDPPIAPPKSGVILKLTLFFSIPYFYLIFYHCKIEHELR

Parental  KSILINAALSLAGFFVTVKMIPVASRYVLKRNLFGYDINKKGTPQGTVKVPESLGIVVGIVFLVLGILFQ
          KSILINAALSLAG.FVTVKMIPVASRYVL.RNLFGYDINKKGTPQGTVKVPESLGIVVGIVFLVLGILFQ
Retrocopy KSILINAALSLAGLFVTVKMIPVASRYVLRRNLFGYDINKKGTPQGTVKVPESLGIVVGIVFLVLGILFQ

Parental  YFNFTADSNWLVEYNAALASICFMVLLGFVDDVLDIPWRVKLLLPSFAALPLLMAYAGHTTIIIPKPLIP
          YFNFTADSNWLVEYNAALASICFMVLLGFVDDVLD.PWRVKLLLPS.AALPLL.AYAGHTTIIIPKPLIP
Retrocopy YFNFTADSNWLVEYNAALASICFMVLLGFVDDVLDVPWRVKLLLPSIAALPLLLAYAGHTTIIIPKPLIP

Parental  YVGLEVLDLGWMYKLYMGLLAVFCTNSINIHAGLNGLEVGQTVVIASAILIHNIMQIGASADSEYKMAHA
          .VGLEVLDLGWMYKLYMGLLAVFCTNSINIHAGLNGLEVGQTV.IASAILIHNIMQIGASADSEYKMAHA
Retrocopy HVGLEVLDLGWMYKLYMGLLAVFCTNSINIHAGLNGLEVGQTVIIASAILIHNIMQIGASADSEYKMAHA

Parental  FSLYLVQPLLATSLALFSYNWYPSSAFVGDTYTYFAGMTMAVAGILGHFSETLLIFFVPQVLNFLLSLPQ
          FSLYLVQPLLATSLALFS.NWYPSSAFVGDTYTYFAGMTMAVAGILGHFSETLLIFFVPQVLNFLLSLPQ
Retrocopy FSLYLVQPLLATSLALFSHNWYPSSAFVGDTYTYFAGMTMAVAGILGHFSETLLIFFVPQVLNFLLSLPQ

Parental  LAGIVPCPRHRLPKFDPGTGLLTGTNDGTLVNFFLRRFGRMTEKSLCIYLLVFQAIACCFCFVLRFFLAG
          LAGIVPCPRHRLP.FDPGTGLLTGTNDGTLVNFFLRRFGRMTEKS.CI.LLVFQAIACCFCFVLRFFLAG
Retrocopy LAGIVPCPRHRLPRFDPGTGLLTGTNDGTLVNFFLRRFGRMTEKSICICLLVFQAIACCFCFVLRFFLAG

Parental  WYK
          WYK
Retrocopy WYK

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_18 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Prunus persica	PRUPE_ppa006193mg	1 retrocopy	retro_pper_18 ,