RetrogeneDB ID: retro_taes_79

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_7DS_scaff_3893329:3657..4194(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_7DS_D417E8FEF
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2BL_BB2C0F695
• Aliases: None
• Description: None

Sequence

>retro_taes_79
ACCTATAAAATTCCCACCCCACTTCTCTCCTCTCCTCACAACCCAATCCGTCGCGATCCACTTCAAGTTCCCCAAATCCC
CAACCCCGCAGCGCGCGCAGGCCGAAGCCCGGTTCGCAGTCGACGAGAAGCAGGAGAGATCGATGGCGCGTACGAAGCAG
ACCGCCCGGAAGTCTACCGGCGGCAAGGCGCCTCGCNGGCGGCGAGGAAGTCGGCGCCGACCACCGGCGGCGTGAAGAAG
CCCCACCGCTACAGGCCCGGCACGGTGGCGCTGCGTGAGATCCGCAAGTACCAGAAGAGCACGGAGCTGCTCATCCGCAA
GCTGCCGTTCCAGCGCCTGGTGCGGGAGATCGCGCAGGACTTCAAGACGGACCTCCGGTTCCAGAGCCACGCCGTGCTGG
CGCTCCAGGAGGCTGCCGAGGCGTACCTCGTCGGGCTCTTCGAGGACACCAACCTCTGCGCCATCCACGCCAAGCGCGTC
ACCATCATGCCCAAGGACATCCAGCTCGCCCGCCGCATCCGCGGGGAGCGCGCCTAG

Alignment

ORF - retro_taes_79 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 96.64 %
• Parental protein coverage: 87.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  RKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQS
          R.Q.A..AARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQS
Retrocopy RRQGASXAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQS

Parental  HAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
          HAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA
Retrocopy HAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA

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_79 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Amborella trichopoda	AMTR_s00225p00023630	1 retrocopy	retro_atri_4,
Triticum aestivum	Traes_2BL_BB2C0F695	1 retrocopy	retro_taes_79 ,