RetrogeneDB ID: retro_taes_110

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2D:53682352..53682647(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_3DL_E7983BF89
• Aliases: None
• Description: None

Sequence

>retro_taes_110
AACAGTAGTGCCAAGGTTCAGTTCAGCAAAGAGACCAACTACCTCTATAATGTCCACTCCTACTGGTCTCTGACCTGTGA
AACAAGAAGACATGGTGCAGCTAGCTGCTGAAAAGGAGAGGACCATGGTCCTCTTGACAACGAAGACGAAGACGCAGCAG
ACCAAGCCTTCTGCGTTCTCCACTCGCATGCACAAGTAGTTCCGCAAGATGGCAAATGCTGTCAAGAACCAGGAAACTGG
CAACTGCTACATGACAGAACCCTCTCTTGCAAAACTTCCAATTTACCACAACCTG

Alignment

ORF - retro_taes_110 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.4 %
• Parental protein coverage: 73.43 %
• Number of stop codons detected: 2
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  NSNAKVQFSKEPNNLYNVHSY-KYSGLANKKT-VTVQPAAEKEMTVVLSTTKSKKQNKPAAFTHKTVMRK
          NS.AKVQFSKE.N.LYNVHSY...S.L.NKKT......A......V.L.T.....Q.KP.AF...T.M.K
Retrocopy NSSAKVQFSKETNYLYNVHSY<LVSDL*NKKT<MVQLAAEKERTMVLLTTKTKTQQTKPSAFS--TRMHK

Parental  EFRKMAKAVKNQVSDNYYRPDLTKPALARLSAVYRSL
          .FRKMA.AVKNQ...N.Y....T.P.LA.L...Y..L
Retrocopy *FRKMANAVKNQETGNCY---MTEPSLAKL-PIYHNL

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_110 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
Hordeum vulgare	MLOC_27966	2 retrocopies	retro_hvul_61, retro_hvul_62,
Triticum aestivum	Traes_3DL_E7983BF89	1 retrocopy	retro_taes_110 ,