RetrogeneDB ID: retro_taes_60

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DL_scaff_14433090:494..1199(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DL_0AC563929
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF099200050CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_60
GCCAGTCTGACGCCATCTGACTCTTCTCTTCCGCCATGGGGCTCGTCTTCTCCAAAGTGTTCTCCAAGCTCTTTGGTACT
GCAACGCGCACCCCCTGGCCCCGGCCTGCCGTTGCCGCCCGATCGCACCGCACCTCTCCACTCTCCATCGCGGCCTGCCG
TTGCCGCCCGATCGCACCGCACCTCTCCACTCTCCATCACAGGGAAGAAGGACGTGCGCATCCTCATGGTCGGCCTCGAC
GCGGCGGGCAAGACAACCATCCTGTACAAGCTCAAGCTGGGCGAGATTGTGACGACCATCCCGACGATCGGCTTCAACGT
CGAGACCGTCGAGTACAAGAACATCTCCTTCACGGTGTGGGACGTCGGCGGCCAGGACAAGATCCGCCCGCTCTGGCGCC
ACTACTACCAAAACACGCAGGGCGTCATCTTTGTCGTCGACTCGAACGACCGCGACCGAGTCGTCGAGGCGCGCGACGAG
CTGCACCGCATGCTCAACGAGGACGAACTCCGCCAGGCGATCCTACTGGTCTTTGCCAACAAGCAGGACTTGCCCAACGC
GATGAATGCAGCAGAGATCACTGACAAGCTCGGCCTCCACTCCCTCCGGCAGCGGAACTGGTACATTCAATCGACGTGCG
CGACGACGGGCGACGGCCTCTACGAGGGCCTCGACTGGCTCTCCTCGTCAATCTCTACCCTCCCC

Alignment

ORF - retro_taes_60 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 92.07 %
• Parental protein coverage: 90.11 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYFQN
          KK..RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHY.QN
Retrocopy KKDVRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVETVEYKNISFTVWDVGGQDKIRPLWRHYYQN

Parental  TQGLIFVVDSNDRERVVEARDELHRMLNEDELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRQRHWY
          TQG.IFVVDSNDR.RVVEARDELHRMLNEDELR.A.LLVFANKQDLPNAMNAAEITDKLGLHSLRQR.WY
Retrocopy TQGVIFVVDSNDRDRVVEARDELHRMLNEDELRQAILLVFANKQDLPNAMNAAEITDKLGLHSLRQRNWY

Parental  IQSTCATSGEGLYEGLDWLSNNIA
          IQSTCAT.G.GLYEGLDWLS..I.
Retrocopy IQSTCATTGDGLYEGLDWLSSSIS

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_60 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
Prunus persica	PRUPE_ppa017304mg	1 retrocopy	retro_pper_38,
Triticum aestivum	TRAES3BF099200050CFD_g	1 retrocopy	retro_taes_60 ,