RetrogeneDB ID: retro_taes_171

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2AS_scaff_5189027:600..1071(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5AL_6F55F4E44
• Aliases: None
• Description: None

Sequence

>retro_taes_171
CCCGTCTGCTACGCCTGGTGCGATCCTTCCCCGCAAATGCATGTAACCCAGGGGATCTCGATGGCGATCAACGTCAACAA
GATGATCGAAGTGGGCTGCCAAGTCAAAATTCTGATGGCGGATTGGTTAGCTCGGATGGATCATCACATCGGTGGCAAGG
TCGGTGGCGATCTGAGTAAGGTACGTGATGTTGGCCTGTACAACATTGAGATGTGGAGAGCGGCCGGCATGGATCTCGAC
AGGGTCGAGCTCGTGTGGCTGTCGGAGCAAATAAGCCGCCACGTGGACGAGTTCTGGCCGCTTGTCATGGATGTTGGCAG
AAAAAGCGACACGAAAAGAATAAAAAAGTCGCTCTGCGTTCATCGCACGGATGATACGAGGGGCCATGGGAGCTTAGATC
CCTACTTGTTTAGGGATTTCACTCCTGCCGAGATATTCCATCCTTGCTTGCAGTGTGCCGGCATAGTGCTG

Alignment

ORF - retro_taes_171 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.12 %
• Parental protein coverage: 51.13 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  PVCYVWCDPSPWMHITQGISMTSNVNKMVKAGFEVKLLMADWFARMDPQITMKVGSDLSNIQTIGRYNIE
          PVCY.WCDPSP.MH.TQGISM..NVNKM...G..VK.LMADW.ARMD..I..KVG.DLS.....G.YNIE
Retrocopy PVCYAWCDPSPQMHVTQGISMAINVNKMIEVGCQVKILMADWLARMDHHIGGKVGGDLSKVRDVGLYNIE

Parental  VWKAIGMNLGGVEVVQLSDKISCKTDEYWSLAMDIARKSDLSRIKSWLRVYASKDPSMRCQGSIDPYMSR
          .W.A.GM.L..VE.V.LS..IS...DE.W.L.MD..RKSD..RIK..L.V....D...R..GS.DPY..R
Retrocopy MWRAAGMDLDRVELVWLSEQISRHVDEFWPLVMDVGRKSDTKRIKKSLCVHRTDD--TRGHGSLDPYLFR

Parental  EFSAAEIANPCLQSAGILL
          .F..AEI..PCLQ.AGI.L
Retrocopy DFTPAEIFHPCLQCAGIVL

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_171 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_5AL_6F55F4E44	2 retrocopies	retro_taes_108, retro_taes_171 ,