RetrogeneDB ID: retro_taes_12

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_5AS_scaff_335480:71..473(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_5AS_F2D18E635
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF026200060CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_12
ATGGTCCCGGCCTACTGCAAGAACAAGTACGCTGGTATTGGGTCGGCCATAGAGTACGCCGTGTGCGCTCTCAAGGTCGA
GGTCATCGTGGTGATTGGCCACAGCTGCTGCGGTGGAATCAAGGCACTCCTGTCACTCAAGGATGGCGCAGACGACTCCT
TCCACTTCGTCGAGGACTGGGTCAGGATCGGGCACCCTGCTAAGATGAAGGTGAAGAAAGAGTGCTCCTCCTTGTCTTTC
GATGAGCAATGCGCCGTCTTGGAAAAGGAGGCCGTGAACACGTCCCTCCAGAACCTCAAGACCTACCCGTTTGTCACCGA
AGGTGTGGCCAACGGAACCCTCAAGCTCGTCGGCGGACACTACGACTTCGTCTCCGGCAAGTTCGACACATGGGAACTGT
AA

Alignment

ORF - retro_taes_12 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 86.36 %
• Parental protein coverage: 51.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MVPSYCKNKYAGVGSGIEYAVCALKVEVIVVIGHSRCGGIKALLSLKDGADDSFHFVEDWVRIGFPAKKK
          MVP.YCKNKYAG.GS.IEYAVCALKVEVIVVIGHS.CGGIKALLSLKDGADDSFHFVEDWVRIG.PAK.K
Retrocopy MVPAYCKNKYAGIGSAIEYAVCALKVEVIVVIGHSCCGGIKALLSLKDGADDSFHFVEDWVRIGHPAKMK

Parental  VQTECASMPFDDQCTVLEKEAVNVSLQNLLTYPFVKEGVSNGTLKLVGGHYDFVSGKFETWE
          V..EC.S..FD.QC.VLEKEAVN.SLQNL.TYPFV.EGV.NGTLKLVGGHYDFVSGKF.TWE
Retrocopy VKKECSSLSFDEQCAVLEKEAVNTSLQNLKTYPFVTEGVANGTLKLVGGHYDFVSGKFDTWE

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_12 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	TRAES3BF026200060CFD_g	2 retrocopies	retro_taes_12 , retro_taes_207,
Vitis vinifera	VIT_17s0000g08460	1 retrocopy	retro_vvin_7,