RetrogeneDB ID: retro_taes_45

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 1D:59318627..59319089(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_1DL_67B1E7A2D
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_8FFD203BD
• Aliases: None
• Description: None

Sequence

>retro_taes_45
ATGCAGATCTTCGTGAAGACCTTGACGGATAAGACCATCATCCTGGAGGTGGAGAGCAGCGACACCATTGACAACGTCAA
GGCCAAGATCCAGGACAAGGAGGGCATCCCGCCGGACCAGCAGCGGCTCATCTTCGCCGGGAAGCAGCTCGAGGACGGCC
GCACGCTTGCTGACTACAACGTGCAGAAGGAGTCCACGCTGCACTTGGTGCTCCGCCTCCGCGGCGGCACCACCATCAAG
GTCAAGACGCTCACCGGCAAGGAGATTGAGATCGACATCGACCCCACCGACACGGTGGACCGCATCAAGGAGCGCGTCGA
GGAGAAGGAGGGCATCCCGCCCGTGCAGCAGAGGCTCATCTTCGCCGGCAAGCAGCTCGCTGACGACAAGACTGCCAAGG
ACTACAACATCAAGGGCGGTGACGTGCTGCACCTCGTCCTCACCCTCAGGGGCGGTGGCTCT

Alignment

ORF - retro_taes_45 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.42 %
• Parental protein coverage: 99.35 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MQIFVKTLTGKTITLEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNIQKESTLHLV
          MQIFVKTLT.KTI.LEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYN.QKESTLHLV
Retrocopy MQIFVKTLTDKTIILEVESSDTIDNVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLADYNVQKESTLHLV

Parental  LRLRGGTMIKVKTLTGKEIEIDIEPTDTIDRIKERVEEKEGIPPVQQRLIYAGKQLADDKTAKDYNIEGG
          LRLRGGT.IKVKTLTGKEIEIDI.PTDT.DRIKERVEEKEGIPPVQQRLI.AGKQLADDKTAKDYNI.GG
Retrocopy LRLRGGTTIKVKTLTGKEIEIDIDPTDTVDRIKERVEEKEGIPPVQQRLIFAGKQLADDKTAKDYNIKGG

Parental  SVLHLVLALRGG
          .VLHLVL.LRGG
Retrocopy DVLHLVLTLRGG

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_45 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 5 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr3G30150_001	1 retrocopy	retro_macu_90,
Triticum aestivum	Traes_5BL_8FFD203BD	4 retrocopies	retro_taes_156, retro_taes_160, retro_taes_166, retro_taes_45 ,