RetrogeneDB ID: retro_stub_10

Retrocopy location

• Organism: Potato (Solanum tuberosum)
• Coordinates: 11:7368620..7369001(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: PGSC0003DMG400046105
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: PGSC0003DMG400005907
• Aliases: None
• Description: None

Sequence

>retro_stub_10
ATGGAATTTGAAGAAAACTTTGTTGATGATGACTTTTTGAAGGGTAAATGTCTAATGAATAGTGAAGTAGCATTGATTCT
TCAACACAAATATGAGAAAATGTGTGATGAACATTCAACTAATCAAGTATTTGAAAAGTCATTGCAATATGTGAAGCGTT
TCAGTCAGAATAATAACCCTTATGCTGTTACACAAGTTCGTCACATTCTTAGTAGCTATCCTATTTCTGAAGTCGATCTA
TGTGTTCTTGGTAATCTTTGCCCTAAATCTGTTGAAGAAAGTATTGCCATGGTGCAACCTAAAGGACTTGCAAGACTTGA
CGACGAAGCAATAAAGAAAATACTAACGGAGCTTTCTCTATTAAAGAAATTTGATATGTAG

Alignment

ORF - retro_stub_10 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 63.2 %
• Parental protein coverage: 90.58 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IGDEFLKAKCLMNCEVALILEHKYEQLQQMSDDPTNQISQVFEKSLQYVKRFSRYKNPDAVRQAREILSR
          ..D.FLK.KCLMN.EVALIL.HKYE....M.D.......QVFEKSLQYVKRFS...NP.AV.Q.R.ILS.
Retrocopy VDDDFLKGKCLMNSEVALILQHKYEK---MCDE--HSTNQVFEKSLQYVKRFSQNNNPYAVTQVRHILSS

Parental  YPLAEFELCVLGNLCPETVEEGIAMVPSIKNRGRALDEEAIEKMLTDLSLIKKFE
          YP..E..LCVLGNLCP..VEE.IAMV...K...R.LD.EAI.K.LT.LSL.KKF.
Retrocopy YPISEVDLCVLGNLCPKSVEESIAMVQP-KGLAR-LDDEAIKKILTELSLLKKFD

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_10 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	PGSC0003DMG400005907	1 retrocopy	retro_stub_10 ,