RetrogeneDB ID: retro_taes_61

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_2268339:186..735(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_3C88F9963
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1AS_70E8717D0
• Aliases: None
• Description: None

Sequence

>retro_taes_61
ATGGCAGCTGAGGAAGAGGAAGTGATAGAACCTCAGGCTAAAGTGACGAACAAGGTTTACTTTGATGTTGAGATTGGTGG
TGAAGTCGCTGGAAAGATTGTGATGGGTCTGTTTGGTGACGTCGTGCCCAAAACCGTTGAAAACTTCCGTGTCTTGTGTA
CTGGTGAGAAGAAGTATGGATACAAAGGTTCTTCTTTCCATCGTATTATTAAAGATTTCATGATCCAAGGAGGTGACTTC
ACCGAGGGAAATGGTACTGGAGGTATTAGTATCTACGGTGCCAAATTTGAAGATGAAAACTTCACCTTGAAGCATACTGG
ACCTGGAATCTTGAGTATGGCAAACGCTGGTCCTAATACTAATGGAAGTCAGTTCTTCATTTGCACTGTCAAGACTCCAT
GGTTAGATGGCAAGCATGTTGTGTTTGGACAAGTCATTAAAGGTATGAAGCTTGTGAGGACACTTGAATCTCAGGAGACA
CGCGCCTTCGATGTTCCCAAGAAAGGTTGCAGAATCTATGCCTGTGGAGAGCTCCCTCTGGATGCTTGA

Alignment

ORF - retro_taes_61 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 71.98 %
• Parental protein coverage: 74.29 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ATAEPYAPELQSKVTNKVYFDISIGNPVGKNVGRIVIGLYGDDVPQTVENFRALCTGEKGFGYKGSSFHR
          A..E....E.Q.KVTNKVYFD..IG...G...G.IV.GL.GD.VP.TVENFR.LCTGEK..GYKGSSFHR
Retrocopy AAEEEEVIEPQAKVTNKVYFDVEIG---GEVAGKIVMGLFGDVVPKTVENFRVLCTGEKKYGYKGSSFHR

Parental  VIKDFMIQGGDFDKGNGTGGKSIYGRTFKDENFQLVHTGPGVLSMANAGPNTNGSQFFICTVKTPWLDGR
          .IKDFMIQGGDF..GNGTGG.SIYG..F.DENF.L.HTGPG.LSMANAGPNTNGSQFFICTVKTPWLDG.
Retrocopy IIKDFMIQGGDFTEGNGTGGISIYGAKFEDENFTLKHTGPGILSMANAGPNTNGSQFFICTVKTPWLDGK

Parental  HVVFGQVLEGMDIVRTIESSETDRGDRPKKKVVISECGELPV
          HVVFGQV..GM..VRT.ES.ET...D.PKK...I..CGELP.
Retrocopy HVVFGQVIKGMKLVRTLESQETRAFDVPKKGCRIYACGELPL

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_61 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_1AS_70E8717D0	1 retrocopy	retro_taes_61 ,