RetrogeneDB ID: retro_taes_42

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_673545:11..614(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_988A9B362
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2DS_5AA2EEDB7
• Aliases: None
• Description: None

Sequence

>retro_taes_42
ATGACGAAGAACTACCCAGCTGTTAGCGAAGAGTACCAGAAGGCTATTGAGAAGTGCAAGAGGAAGCTGAGAGGCTTGAT
CGCTGAGAAGAACTGTGCACCAATCATGGTTCGCCTCGCATGGCACTCTGCTGGAACATTTGATTGCGCCTCGAGGACTG
GTGGTCCGTTTGGAACAATGAGGTTTGACGATGAGCTAGCTCATGGAGCCAACAATGGTCTCCACATTGCTCTTAGGTTG
TTGGAGCCTATCAGGGAGCAGTTCCCTACCATCTCCCATGCTGATTTCCATCAGCTTGCTGGTGTTGTGGCTGTTGAAGT
CACCGGTGGACCTGAAATTCCTTTCCACCCTGGAAGAGAGGACAAGCCCCAGCCACCTCCAGAGGGTCGTCTCCCTGATG
CCACAAAGGGTTGTGACCACTTGAGGCAGGTCTTCTTAAAGCAGATGGGTTTAACTGACCAGGACATCGTCGCTCTGTCT
GGTGCCCACACTCTGGGAAGATGCCACAAGGATAGGTCTGGCTTCGAAGGTGCCTGGACTTCAAACCCTCTTATCTTCGA
CAACTCTTACTTCAAGGAACTTTTGAGCGGTGAGAAGGAAGGT

Alignment

ORF - retro_taes_42 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 80.9 %
• Parental protein coverage: 52.51 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KCYPTVSDEYLAAVAKAKRKLRGFIAEKNCAPLMLRLAWHSAGTFDVATKTGGPFGTMKCPAELAHGANA
          K.YP.VS.EY..A..K.KRKLRG.IAEKNCAP.M.RLAWHSAGTFD.A..TGGPFGTM....ELAHGAN.
Retrocopy KNYPAVSEEYQKAIEKCKRKLRGLIAEKNCAPIMVRLAWHSAGTFDCASRTGGPFGTMRFDDELAHGANN

Parental  GLDIAVRLLEPIKEQFPILSYADFYQLAGVVAVEVTGGPEVPFHPGRQDKPEPPPEGRLPDATQGSDHLR
          GL.IA.RLLEPI.EQFP..S.ADF.QLAGVVAVEVTGGPE.PFHPGR.DKP.PPPEGRLPDAT.G.DHLR
Retrocopy GLHIALRLLEPIREQFPTISHADFHQLAGVVAVEVTGGPEIPFHPGREDKPQPPPEGRLPDATKGCDHLR

Parental  QVFSTQMGLSDQDIVALSGGHTLGRCHKERSGFEGAWTANPLIFDNSYFTELLSGEKEG
          QVF..QMGL.DQDIVALSG.HTLGRCHK.RSGFEGAWT.NPLIFDNSYF.ELLSGEKEG
Retrocopy QVFLKQMGLTDQDIVALSGAHTLGRCHKDRSGFEGAWTSNPLIFDNSYFKELLSGEKEG

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_42 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	Traes_2DS_5AA2EEDB7	1 retrocopy	retro_taes_42 ,