RetrogeneDB ID: retro_taes_204

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DL_scaff_14467799:3065..3599(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1AL_287433591
• Aliases: None
• Description: None

Sequence

>retro_taes_204
ATAGGTGTAGGCGGCCCAGTTGGTGCCGGAAAAACAATGCTTGTCGAGAAGTTGACACGGGTAATGGAAAATGACTTTAG
CATGGCAGTTGTAACGAATGATATATATACAAAAGAAGATGCGCTGTTTTTAATGAAAAATGGTGTACTTCCTGAAAATC
GGATCATTGGTGTGGAAACCGGCGGCTGTCCTCATACAGCGATACGTGAGGACGCCTCGATGAATTTCGCAGCCATTGAT
GAGTTGATGGAACTCCATCCGGAACTCGATTTGATTTTTGTGGAGAGCGGCGGTGATAATTTAGCGGCGACCTTCAGCCC
TGAACTCGTCGACTTTTCAATCTATATCATTGATGTCGCACAAGGGGAGAAAATCCCCCGGAAAGGTGGCCAGGGAATGA
TTAAATCGGATTTATTCATCATTAATAAAACGGACTTGGCCCCTTATGTAGGAGCAAGCCTGGAAGTGATGGAGAGGGAT
ACATTAACGACCCGAGGGGATAAACCTTTCTTTTTTACTAACTTAAAAGACGAA

Alignment

ORF - retro_taes_204 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 57.87 %
• Parental protein coverage: 62.99 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGIGGPVGTGKTALMLALCTCLRDKYSLAAVTNDIFTKEDGEFLVKHGALPEERIRAVETGGCPHAAIRE
          .G.GGPVG.GKT.L...L........S.A.VTNDI.TKED..FL.K.G.LPE.RI..VETGGCPH.AIRE
Retrocopy IGVGGPVGAGKTMLVEKLTRVMENDFSMAVVTNDIYTKEDALFLMKNGVLPENRIIGVETGGCPHTAIRE

Parental  DISINLGPLEELSNLY-KADLLLCESGGDNLAANFSRELADYIIYIIDVSGGDKIPRTGGPGITQADLLV
          D.S.N.....EL..L....DL...ESGGDNLAA.FS.EL.D..IYIIDV..G.KIPR.GG.G....DL..
Retrocopy DASMNFAAIDELMELHPELDLIFVESGGDNLAATFSPELVDFSIYIIDVAQGEKIPRKGGQGMIKSDLFI

Parental  INKTDLASAVGADLAVMERDALRMREGGPFVFAQVQDQ
          INKTDLA..VGA.L.VMERD.L..R...PF.F....D.
Retrocopy INKTDLAPYVGASLEVMERDTLTTRGDKPFFFTNLKDE

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_204 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_1AL_287433591	1 retrocopy	retro_taes_204 ,