RetrogeneDB ID: retro_taes_117

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3A:12217109..12217658(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF057900160CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_117
TTTAAATTAATTAGTGGCCCTTGCGCCTTTTACCGTTACATGATCATCACAATTCAATCACATGCATGTGTTCCTATGTA
CGTTTTCGACAGGTTCTCACAAGCAGCTGACATCGGCCATGTTAACATACTCGAGATATGTGCCAAGATACGGAGAAACA
TGCTCTCTCAAAACACAACCTACGTGGCATACATGGTGTTCAAGCTAGGACCCAGATTTTACAGCTTTGATTTCCCGTTT
CAAGAAGCCTCATTTGGAGTTGCTGGGAGACAGTCGACCCGGCAGGTTTGCCTGCAAGGCTATGTCGAGGACGGTGATGG
AGCCGATGTTCCACCTCGGAAACACATCGTGCCAAGTTCTTACAGTATATATAATCATGACGAGGTTCCTCCTCAAAAGA
ACGTTGTTTTCCCACGTAAGAAAGCCGGCGGTTGGATGGAGGTGGAGCTTGGTGAGTTCCATAATGAGGGAGGTGACGGT
GAGGTCTCCATCAGCTTGACCGAGACAACAAAACCCAAGAGTGGCCTTATTGTCTGGGGCATTGTGATA

Alignment

ORF - retro_taes_117 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.38 %
• Parental protein coverage: 66.79 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FRRLSDEPALLPGKYVAISASTCILLSVPKVPRFSQAADIGHVNILKICAKIQRNMLSQNITYVAYMVFK
          F...S...A........I....C....V....RFSQAADIGHVNIL.ICAKI.RNMLSQN.TYVAYMVFK
Retrocopy FKLISGPCAFYRYMIITIQSHACVPMYV--FDRFSQAADIGHVNILEICAKIRRNMLSQNTTYVAYMVFK

Parental  LGPRFYCFDFPFQEASFGVVGTQSIQQVCLQGYVEDGDGTGVPPRKHIMPSSYSIYNRDEVPTQKNVVFP
          LGPRFY.FDFPFQEASFGV.G.QS..QVCLQGYVEDGDG..VPPRKHI.PSSYSIYN.DEVP.QKNVVFP
Retrocopy LGPRFYSFDFPFQEASFGVAGRQSTRQVCLQGYVEDGDGADVPPRKHIVPSSYSIYNHDEVPPQKNVVFP

Parental  RKKADGWMEVELGEFHNEGGDGEVSISLTETTKPKSGLIVWGIVI
          RKKA.GWMEVELGEFHNEGGDGEVSISLTETTKPKSGLIVWGIVI
Retrocopy RKKAGGWMEVELGEFHNEGGDGEVSISLTETTKPKSGLIVWGIVI

Legend:

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

Expression

RNA-Seq

Triticum aestivum was not studied using RNA-Seq expression data.

ChIP-Seq

Triticum aestivum was not studied using ChIP-Seq data.

EST

Triticum aestivum was not studied using EST data.

TSS

Triticum aestivum was not studied using FANTOM5 data.

Lab

retro_taes_117 was not experimentally validated.

Homology

Retrocopy orthology:

Triticum aestivum 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
Triticum aestivum	TRAES3BF057900160CFD_g	1 retrocopy	retro_taes_117 ,