RetrogeneDB ID: retro_taes_2

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1110284:2..323(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_47580730F
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6DL_F16253948
• Aliases: None
• Description: None

Sequence

>retro_taes_2
CAGTGTGGCTTGACCAATTCGAACTATACTGAGCTTGCACAGCTGTACCAGAAGTACAAAGACCATGGGTTTGAGATCCT
TGCATTCCCCTGTAACCAGTTTGGTAATCAAGAACCTGGTTCTAATGAAGAGATTGTTCAGTTTGCTTGTACCCGTTTCA
AGGCCGAGTACCCCATCTTCGACAAGGTTGATGTGAACGGTGACTCGGCTGCTCCAATCTATAAGTTCCTGAAATCAAGC
AAAGGAGGGCTTTTTGGAGACGGAATCAAGTGGAACTTCGCCAAGTTCTTGGTTGACAAAGATGGGAATGTTGTGGACCG
T

Alignment

ORF - retro_taes_2 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 88.79 %
• Parental protein coverage: 54.04 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  QCGLTNSNYTELAQLYEKYKDQGFEILAFPCNQFGGQEPGTNEEIVQFACTRFKAEYPIFDKVDVNGDNV
          QCGLTNSNYTELAQLY.KYKD.GFEILAFPCNQFG.QEPG.NEEIVQFACTRFKAEYPIFDKVDVNGD..
Retrocopy QCGLTNSNYTELAQLYQKYKDHGFEILAFPCNQFGNQEPGSNEEIVQFACTRFKAEYPIFDKVDVNGDSA

Parental  APVYKFLKSSKGSLFGDNIKWNFSKFLVDKEGHVVDR
          AP.YKFLKSSKG.LFGD.IKWNF.KFLVDK.G.VVDR
Retrocopy APIYKFLKSSKGGLFGDGIKWNFAKFLVDKDGNVVDR

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_2 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Physcomitrella patens	PP1S115_90V6	2 retrocopies	retro_ppat_12, retro_ppat_3,
Triticum aestivum	Traes_6DL_F16253948	1 retrocopy	retro_taes_2 ,