RetrogeneDB ID: retro_taes_68

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_2266405:0..636(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_3BFF09227
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF142500040CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_68
ATGCTCGCCGATAAGCTTCTCTTTGAGGCTTTGCAATACTCGCATGTGTGTAAGTACGCGTGCTCAGAAGAAGTACCTGA
GCTTCAAGACATGGGAGGTCCAGTGGAAGGCGGGTTTAGCGTGGCGTTTGATCCATTGGATGGTTCGAGCATTGTGGATA
CAAACTTCACTGTGGGAACTATCTTTGGGGTTTGGCCTGGTGACAAGTTAACCGGAGTCACGGGAGGAGATCAAGTGGCT
GCAGCCATGGGAATCTATGGTCCAAGAACCACTTATGTTTTGGCTGTTAAAGGGTTTCCAGGAACTCATGAGTTCTTACT
TCTTGATGAAGGGAAATGGCAGCATGTTAAGGAGACAACAGAGATTAATGAAGGGAAGATGTTCTCACCAGGAAACTTGA
GAGCCACGTTTGACAACTCCGAATACAGCAAGCTGATTGATTACTACGTGAAAGAGAAGTACACACTTCGATACACAGGA
GGAATGGTTCCTGACGTTAACCAGATTATTGTGAAGGAGAAAGGAATATTCACGAACGTGACTTCGCCTACGGCTAAGGC
AAAGTTGAGGTTGTTGTTCGAAGTGGCTCCTCTTGGCCTGCTCGTTGAGAATGCTGGTGGGTTCAGCAGTGATGGA

Alignment

ORF - retro_taes_68 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 91.51 %
• Parental protein coverage: 53.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLADKLLFEALEYSHVCKYACSEEVPELQDMGGPVEGGFSVAFDPLDGSSIVDTNFTVGTIFGVWPGDKL
          MLADKLLFEAL.YSHVCKYACSEEVPELQDMGGPVEGGFSVAFDPLDGSSIVDTNFTVGTIFGVWPGDKL
Retrocopy MLADKLLFEALQYSHVCKYACSEEVPELQDMGGPVEGGFSVAFDPLDGSSIVDTNFTVGTIFGVWPGDKL

Parental  TGVTGGDQVAAAMGIYGPRTTFVVALKDCPGTHEFLLLDEGKWQHVKDTTTIGEGKMFSPGNLRATFDNP
          TGVTGGDQVAAAMGIYGPRTT.V.A.K..PGTHEFLLLDEGKWQHVK.TT.I.EGKMFSPGNLRATFDN.
Retrocopy TGVTGGDQVAAAMGIYGPRTTYVLAVKGFPGTHEFLLLDEGKWQHVKETTEINEGKMFSPGNLRATFDNS

Parental  DYDKLVNYYVKEKYTLRYTGGMVPDVNQIIVKEKGIFTNVTSPTAKAKLRLLFEVAPLGFLIEKAGGHSS
          .Y.KL..YYVKEKYTLRYTGGMVPDVNQIIVKEKGIFTNVTSPTAKAKLRLLFEVAPLG.L.E.AGG.SS
Retrocopy EYSKLIDYYVKEKYTLRYTGGMVPDVNQIIVKEKGIFTNVTSPTAKAKLRLLFEVAPLGLLVENAGGFSS

Parental  DG
          DG
Retrocopy DG

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_68 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	TRAES3BF142500040CFD_g	1 retrocopy	retro_taes_68 ,