RetrogeneDB ID: retro_stub_38

Retrocopy location

• Organism: Potato (Solanum tuberosum)
• Coordinates: 5:5201356..5201623(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PGSC0003DMG400025548
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PGSC0003DMG400010156
• Aliases: None
• Description: None

Sequence

>retro_stub_38
ATGGCTAGCACCAAAGTTCAAAGGATTATGACCCAGCCCATTAACCTGATTTTCAGGTTTCTTCAGAGCAAAGCTCGGAT
TCAAATATGGCTTTTTGAACAGAAGGATCTGAGGATTGAAGGACGTATCATTGGTTTTGATGAGTACATGAATTTAGTTC
TGGACGATGCTGAGGAAGTTAATGTGAAGAAGAAAACCAGCAAGCAGTTGGGGCGGATTCTTCTGAAAAGCGATAATATT
ACTCTGATGATGAACACGGGAAAATAA

Alignment

ORF - retro_stub_38 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.67 %
• Parental protein coverage: 91.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDDAEEVNVKKKTSKQL
          MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDDAEEVNVKKKTSKQL
Retrocopy MASTKVQRIMTQPINLIFRFLQSKARIQIWLFEQKDLRIEGRIIGFDEYMNLVLDDAEEVNVKKKTSKQL

Parental  GRILLKGDNITLMMNS
          GRILLK.DNITLMMN.
Retrocopy GRILLKSDNITLMMNT

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_38 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	PGSC0003DMG400010156	1 retrocopy	retro_stub_38 ,
Prunus persica	PRUPE_ppa014076mg	1 retrocopy	retro_pper_33,