RetrogeneDB ID: retro_taes_94

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1521999:2..692(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_D9999817B
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4BL_A9FAA75A9
• Aliases: None
• Description: None

Sequence

>retro_taes_94
ATGGCCACACATTCAGCTCTTGCCGTCTCCAGAATCCCCGTCAAACCGAGGCTGCAGTCTAAGAGTGCCATTCACTCTTT
CCCAGCTCAATGTTCCTCCAAGAGGCTGGAAGTGGCTGCATTCTCCGGCCTGCGAGTCAGCAGTAACGGTGGGGAAGCAT
CTTTCTTTGATGCCATAGCTGCTCAAATCACCCCCAAGGCTGTGGGGACACCCTCTCCTGTTAGAGGAGAGACAGTGGCA
AAACTGAAGGTGGCCATCAATGGGTTTGGAAGGATTGGTAGGAACTTCCTCAGGTGTTGGCACGGTCGCAAGGACTCTCC
TCTCGAAGTTGTTGTGCTTAACGACAGTGGTGGTGTCAAGAACGCATCCCACTTGCTCAAGTATGACTCCATGCTTGGAA
CCTTCAAGGCCGATGTGAAAATAGTCGACAATGAAACTATCAGCGTTGATGGCAAGCTCATCAAAGTCGTCTCAAACAGA
GATCCTCTTAAGCTTCCATGGGCTGATCTCGGCATTGACATTGTCATCGAGGGAACAGGAGTGTTTGTTGATGGGCCAGG
AGCAGGGAAGCACATCCAAGCTGGAGCCTCGAAAGTGATCATCACAGCACCAGCTAAAGGCGCTGATATCCCAACCTATG
TTGTGGGAGTCAATGAGCAAGACTATTCTCATGACGTTGCTAACATCATT

Alignment

ORF - retro_taes_94 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 82.16 %
• Parental protein coverage: 69.43 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSAAAREASFSDVLGAQLVARASGE-NTVRAPAEAKLKVAINGFGRIGRNFLRCWHGRENSPLEVIVIND
          VS....EASF.D...AQ....A.G....VR....AKLKVAINGFGRIGRNFLRCWHGR..SPLEV.V.ND
Retrocopy VSSNGGEASFFDAIAAQITPKAVGTPSPVRGETVAKLKVAINGFGRIGRNFLRCWHGRKDSPLEVVVLND

Parental  SGGVRNASHLLKYDSMLGTFKADVKIVDNETISVDGKNIQVVSNRDPLKLPWAELGIDIVIEGTGVFVDG
          SGGV.NASHLLKYDSMLGTFKADVKIVDNETISVDGK.I.VVSNRDPLKLPWA.LGIDIVIEGTGVFVDG
Retrocopy SGGVKNASHLLKYDSMLGTFKADVKIVDNETISVDGKLIKVVSNRDPLKLPWADLGIDIVIEGTGVFVDG

Parental  PGAGKHLQAGAKKVIITAPAKGADIPTYVVGVNEGDYDHDVANII
          PGAGKH.QAGA.KVIITAPAKGADIPTYVVGVNE.DY.HDVANII
Retrocopy PGAGKHIQAGASKVIITAPAKGADIPTYVVGVNEQDYSHDVANII

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_94 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.

---

Parental genes homology:

Parental genes homology involve 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_4BL_A9FAA75A9	1 retrocopy	retro_taes_94 ,