RetrogeneDB ID: retro_taes_97

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1122851:1..619(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_1C3F09598
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4BS_D12DBE6D3
• Aliases: None
• Description: None

Sequence

>retro_taes_97
ATGGACGAGTCGAACGCCACATGCGGGAAGCGTTTGGACTCGATAGGGCTAGAGAACACTGAGGCAAACCGTCAAGCATA
CCGGACACTGCTTGTCTCTGCACCAGGTCTCGGACAGTACATCTCCGGTGCAATCCTGTTCGAGGAGACTCTCTATCAGT
CTACCACCGAAGGCAAGAAAATGGTCGACGTCCTAGTCGAGCAGAACATCGTCCCCGGTATCAAAGTCGACAAGGGTTTG
GTGCCACTTGTTGGATCTAACAATGAGTCATGGTGCCAAGGACTTGACGGTCTATCCTCTCGGACCGCTGCTTACTACCA
ACAGGGTGCTCGTTTCGCCAAATGGCGTACTGTGGTGAGCATTCCCAACGGTCCGTCTGCTCTCGCTGTGAAAGAAGCTG
CTTGGGGCCTTGCTCGATACGCTGCCATTTCACAAGACAGTGGATTGGTTCCCATAGTGGAGCCAGAGATCTTGTTGGAT
GGAGAACACGACATTGACAGGACTTACGAAGTAGCTGAGAAGGTGTGGGCTGAGGTTTTCTTTTACCTAGCTCAGAACAA
TGTCATGTTTGAAGGTATCCTCCTGAAGCCGAGCATGGTGACTCCAGGAGCCGAGTCT

Alignment

ORF - retro_taes_97 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 89.27 %
• Parental protein coverage: 52.84 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MDESNATCGKRLASIGLENTEANRQAYRTLLVTPPGLGNYISGAILFEETLYQSTVDGKKIVDILVEQGI
          MDESNATCGKRL.SIGLENTEANRQAYRTLLV..PGLG.YISGAILFEETLYQST..GKK.VD.LVEQ.I
Retrocopy MDESNATCGKRLDSIGLENTEANRQAYRTLLVSAPGLGQYISGAILFEETLYQSTTEGKKMVDVLVEQNI

Parental  VPGIKVDKGLVPLVGSNDESWCQGLDGLASREAAYYQQGARFAKWRTVVSIPNGPSELAVKEAAWGLARY
          VPGIKVDKGLVPLVGSN.ESWCQGLDGL.SR.AAYYQQGARFAKWRTVVSIPNGPS.LAVKEAAWGLARY
Retrocopy VPGIKVDKGLVPLVGSNNESWCQGLDGLSSRTAAYYQQGARFAKWRTVVSIPNGPSALAVKEAAWGLARY

Parental  AAISQDNGLVPIVEPEIMLDGEHGIERTFEVAQKVWAETFYYMAQNNVMFEGILLKPSMVTPGAE
          AAISQD.GLVPIVEPEI.LDGEH.I.RT.EVA.KVWAE.F.Y.AQNNVMFEGILLKPSMVTPGAE
Retrocopy AAISQDSGLVPIVEPEILLDGEHDIDRTYEVAEKVWAEVFFYLAQNNVMFEGILLKPSMVTPGAE

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_97 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
Aegilops tauschii	F775_32412	1 retrocopy	retro_atau_28,
Triticum aestivum	Traes_4BS_D12DBE6D3	1 retrocopy	retro_taes_97 ,