RetrogeneDB ID: retro_stub_83

Retrocopy location

• Organism: Potato (Solanum tuberosum)
• Coordinates: 1:36688185..36688461(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PGSC0003DMG400013127
• Aliases: None
• Description: None

Sequence

>retro_stub_83
ATGACCAAGAGAACCAAGAAGGCTGGTATTGTGGGGAAATATGGTACCCGTTATGGTGCCAGTTTGAGGAAGCAGATCAA
GAAGTTGGAGGCCACTCAGCACAACAAGTACTTCTGTGAGTTCTGCAGAAAGTATGCCATCAAGAGGAAAGCTTTTGGTA
TTTGGGGTTGCAAGGACTGTGGCAAAGTGAAAGGTTGTGGTGCTTACACATTGAACACTGCTAGCGCTGTTACCGTAAGG
AACACTATCTGAAGGCTTAGGGAGCAGACTGAGAGC

Alignment

ORF - retro_stub_83 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.04 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MTKRTKKAGIVGKYGTRYGASLRKQIKKMEVSQHSKYFCEFCGKYAVKRKAVGIWGCKDCGKVKAGGAYT
          MTKRTKKAGIVGKYGTRYGASLRKQIKK.E..QH.KYFCEFC.KYA.KRKA.GIWGCKDCGKVK..GAYT
Retrocopy MTKRTKKAGIVGKYGTRYGASLRKQIKKLEATQHNKYFCEFCRKYAIKRKAFGIWGCKDCGKVKGCGAYT

Parental  LNTASAVTVRSTIRRLREQTES
          LNTASAVTVR.TI.RLREQTES
Retrocopy LNTASAVTVRNTI*RLREQTES

Legend:

• *: Stop codon
• >: Forward frameshift by one nucleotide
• <: Reverse frameshift by one nucleotide

Expression

RNA-Seq

Solanum tuberosum was not studied using RNA-Seq expression data.

ChIP-Seq

Solanum tuberosum was not studied using ChIP-Seq data.

EST

Solanum tuberosum was not studied using EST data.

TSS

Solanum tuberosum was not studied using FANTOM5 data.

Lab

retro_stub_83 was not experimentally validated.

Homology

Retrocopy orthology:

Solanum tuberosum 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Solanum tuberosum	PGSC0003DMG400013127	1 retrocopy	retro_stub_83 ,
Triticum aestivum	Traes_1AL_DF31196A4	1 retrocopy	retro_taes_58,