RetrogeneDB ID: retro_pper_57

Retrocopy location

• Organism: Peach (Prunus persica)
• Coordinates: scaffold_1:3220150..3220756(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PRUPE_ppa019563mg
• Aliases: None
• Description: None

Sequence

>retro_pper_57
CTTACCATCACAGCACCTGATGAGAGCAGAAACACAGATGGAATCCATATCGGGGCTTCAACTAGTATCAACATTACTCA
TGCAAAGATTGGAACTGGGGATGACTGTGCTTCTATTGGTGATGACTCCCACCAAATCACAGTGACTGATGTTACTTGTG
GGCCAGGCCATGGAATAAGCATTGGAAGCCTTGGAAGATATAAGGAAGAAAAGGATGTGACCGGGATCATAGTTAAGAAC
TGCACCCTAACTAATACGCAAAACGATGTGAGAATCAAAACATGGCCAGATTCTCCTTCGCCTAGCACTGCCTCAGATAT
ACACTATGAGGATATTACTATGGTTAATGTTAGTAAACCTATCCTCATAGACCAATTGTACTGCCCATATACTCGGTGTG
ACCAAAAGCCTCCGTCAAAAGTTAAGATCAGCAATGTCAGCTTCAAGAACATTAGGGGCTCATCTTTCACTCCACTTGCA
GTCAAGCTTGTATGTACCAGGGGCATACCGTGTGAGAATGTGGAGTTGACTAACATTGATCTCACCTACGGTGGAGACCA
AGGCCCTCTTACCTCTCTATGTTCTAATGTCAAGCCCAGAATTACT

Alignment

ORF - retro_pper_57 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.97 %
• Parental protein coverage: 52.2 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LKISAPETSPNTDGIHIERSSSVYFSLSHIATGDDCISVGQGNSQITITSITCGPGHGISVGSLGKYPDE
          L.I.AP..S.NTDGIHI..S.S.......I.TGDDC.S.G....QIT.T..TCGPGHGIS.GSLG.Y..E
Retrocopy LTITAPDESRNTDGIHIGASTSINITHAKIGTGDDCASIGDDSHQITVTDVTCGPGHGISIGSLGRYKEE

Parental  RDVSGLVVKDCTMTGTTNGIRIKTWANSPGNSAATNMTFENIVMNNVTNPIIIDQLYCPFTSCTSKAPSR
          .DV.G..VK.CT.T.T.N..RIKTW..SP..S.A.....E.I.M.NV..PI.IDQLYCP.T.C..K.PS.
Retrocopy KDVTGIIVKNCTLTNTQNDVRIKTWPDSPSPSTASDIHYEDITMVNVSKPILIDQLYCPYTRCDQKPPSK

Parental  VKLSDIYFKNIRGTSSSEVAVALECSKGIPCQNIYLEDVHLDLSSGEKQATSSCSNVKAKFS
          VK.S...FKNIRG.S....AV.L.C..GIPC.N..L....L.........TS.CSNVK....
Retrocopy VKISNVSFKNIRGSSFTPLAVKLVCTRGIPCENVELTNIDLTYGGDQGPLTSLCSNVKPRIT

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_57 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_ppa019563mg	1 retrocopy	retro_pper_57 ,