RetrogeneDB ID: retro_taes_67

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1440538:44..338(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_63C054388
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AL_52D3F9AF41
• Aliases: None
• Description: None

Sequence

>retro_taes_67
ATGGCGGATGTGGAACCAGAGGTTGCAGCGGCAGGAGTCCCGAAGAAGAGGACGTTCAAGAAGTTTGCCTTCAAAGGAGT
CGATCTCGATGCTCTTCTCGATATGTCTACTGATGACCTTGTCAAGCTCTTCCCTTCTCGTATTCGCAGAAGGTTCTCTA
GAGGTTTGACCAGGAAGCCAATGGCTCTGATTAAGAAGCTGCGTAAGGCGAAAAGGGAGGCACCACAAGGTGAGAAGCCA
GAACCAGTGAGAACCCACCTCAGGAACATGATCATTGTCCCAGAGATGATCGGA

Alignment

ORF - retro_taes_67 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.21 %
• Parental protein coverage: 62.34 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DVDTEVAAGAQPKKRTFRKFSYRGVDLDALLDMSTDDLVQMFPARARRRFKRGLKRKPMALVKKLRKAKK
          DV..EVAA...PKKRTF.KF...GVDLDALLDMSTDDLV..FP.R.RRRF.RGL.RKPMAL.KKLRKAK.
Retrocopy DVEPEVAAAGVPKKRTFKKFAFKGVDLDALLDMSTDDLVKLFPSRIRRRFSRGLTRKPMALIKKLRKAKR

Parental  DAPAGEKPEPVRTHLRNMIIVPEMIG
          .AP.GEKPEPVRTHLRNMIIVPEMIG
Retrocopy EAPQGEKPEPVRTHLRNMIIVPEMIG

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_67 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 7 parental genes, and 7 retrocopies.

Species	Parental gene accession	Retrocopies number
Arabidopsis thaliana	AT1G04270	1 retrocopy	retro_atha_20,
Brassica oleracea	Bo5g004420	1 retrocopy	retro_bole_33,
Brassica rapa	Bra032519	1 retrocopy	retro_brap_20,
Arabidopsis lyrata	fgenesh2_kg.1__358__AT1G04270.1	1 retrocopy	retro_alyr_8,
Medicago truncatula	MTR_1g070450	1 retrocopy	retro_mtru_46,
Solanum tuberosum	PGSC0003DMG400007336	1 retrocopy	retro_stub_80,
Triticum aestivum	Traes_2AL_52D3F9AF41	1 retrocopy	retro_taes_67 ,