RetrogeneDB ID: retro_taes_9

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_2264993:1..466(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_AB7B154E7
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4AL_5BD269FF3
• Aliases: None
• Description: None

Sequence

>retro_taes_9
TCTGACTCTTTCCCTTACAAGGAGATTGAGAATGGTATTCTTTGGGAAGTTGAAGGAAAGTGGACTACCCAGGGATGTGT
AGAGGTTAACATTGGTGCCAACCCCTCTGCTGAAGAAGGTGGTGAGGACGAGGGTGTTGACGACTCTGTTCAAAAGGTTG
TTGACATTGTCGACACCTTCAGGCTCCAGGAGCAACCGACCTACGACAAGAAGGGGTTCATCGCCTATATCAAAAAGTAC
ATCAAGCTTTTGACCCCCAAGCTCAACGCCGAAGATCAAGAAGCTTTCAAGAAGGGTATTGAGGGAGCTACCAAGTACTT
GCTCCCTAAGCTCAAGGACTTCCAATTCTTTGTTGGGGAGAGCATGCACGATGACAGCACTGTGGTCTTTGCTTACTACA
AGGAGGGTGCTACTAACCCAACATTTTTGTACTTCGGACATGGTTTGAAGGAGGTCAAGTGCTGA

Alignment

ORF - retro_taes_9 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.03 %
• Parental protein coverage: 56. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SDSFPYRELENGVLWEVDGHWVVQGAVDVDIGANPSAEGGGDDEGVDDQAVKVVDIVDTFRLQEQPAFDK
          SDSFPY.E.ENG.LWEV.G.W..QG.V.V.IGANPSAE.GG.DEGVDD...KVVDIVDTFRLQEQP..DK
Retrocopy SDSFPYKEIENGILWEVEGKWTTQGCVEVNIGANPSAEEGGEDEGVDDSVQKVVDIVDTFRLQEQPTYDK

Parental  KQFISHMKRYIKNLSAKLEGDDLDAFKKNVESATKYLLSKLKDLQFFVGESMHDDGGVVFAYYKEGAADP
          K.FI...K.YIK.L..KL...D..AFKK..E.ATKYLL.KLKD.QFFVGESMHDD..VVFAYYKEGA..P
Retrocopy KGFIAYIKKYIKLLTPKLNAEDQEAFKKGIEGATKYLLPKLKDFQFFVGESMHDDSTVVFAYYKEGATNP

Parental  TFLYFAHGLKEVKC
          TFLYF.HGLKEVKC
Retrocopy TFLYFGHGLKEVKC

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_9 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
Medicago truncatula	MTR_2g436620	1 retrocopy	retro_mtru_2,
Triticum aestivum	Traes_4AL_5BD269FF3	1 retrocopy	retro_taes_9 ,