RetrogeneDB ID: retro_stub_32

Retrocopy location

• Organism: Potato (Solanum tuberosum)
• Coordinates: 12:36293045..36293438(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PGSC0003DMG400039969
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PGSC0003DMG400037766
• Aliases: None
• Description: None

Sequence

>retro_stub_32
ATGAATACACGAAGGTGTAATACTAGAAGGGTGGAAGAGGAAAATGTTAATGAAGAAGCTCCTGAAGCTAATCAAGCTCC
AATTAATCCTTCAGCTATGTCGGATATGGAGGTTAGGTCGGCTTTTAAAATGTTGGCCCAAGCTATGATGACCCAAGCTC
AAGCTTTGACTACTCAAGCTCGAGCAGTGACATCTCATGCCAATAGAGGTGTTGTGACTCATGTGAATTTGGCTGCTTTA
AGGGTTAGGGATTTTTCTAGAATGAACCCTCCCAAATTTCATGGATCCAAAGTGGAAGAGGATCCCCAAAGGTTGATTGA
TAAGTTTTATAAAGTACATGATGTTATTCGAATGTCTCCACAAGAGAAGGCGGAGTTGGCCACCTACCAATAG

Alignment

ORF - retro_stub_32 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.67 %
• Parental protein coverage: 76.97 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MNKRRANARRMESDNVNEEAPQANQAPINPSVMPDVEVRDSLGYEKQVKDEIKGGVTAQTNRDVVTHVNP
          MN.RR.N.RR.E..NVNEEAP.ANQAPINPS.M.D.EVR.......Q.........T.Q..R.V..H.N.
Retrocopy MNTRRCNTRRVEEENVNEEAPEANQAPINPSAMSDMEVRSAFKMLAQAMMTQAQALTTQA-RAVTSHANR

Parental  NVKS----VASNVRDFSRMNPLKFYGSKVEEDPQRFTDILYKVLSIMCVSSEQKEALAAYQ
          .V.......A..VRDFSRMNP.KF.GSKVEEDPQR..D..YKV......S...K..LA.YQ
Retrocopy GVVTHVNLAALRVRDFSRMNPPKFHGSKVEEDPQRLIDKFYKVHDVIRMSPQEKAELATYQ

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_32 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Solanum tuberosum	PGSC0003DMG400037766	1 retrocopy	retro_stub_32 ,