RetrogeneDB ID: retro_taes_134

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 4B:305527765..305528286(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF098800030CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_134
ATGATGCAGATATTTTCACTGAAGCTGGCGTATCCTCCTGCTGGAGACCAAGTTAAGGTGTATGGATTCATGGCTGTCCG
GGATACTCGGGACCATCTGCGTAACTACATCTTCAACCGCACCAGAGATGACCCTTTCATTGTGGAACAAGAGGACGGAT
TTATACAGTTGTCCGGACCCAAGAGAGGCATCTGGTGGTATGACAAGCAGCTGGTTGATTCGACATGAGGATCAAGAGAG
GGGAAAATGAAGCGGATGATCTGCAGCTCATCGACGGCGCCGTCTGGTTCTATGACGGTTGCTCGCCGCAAGCTAGAGTG
CTCACGCAACGCATCGACGGTGACTATGGCTCGGTGGACATAAGCTATGCGCTCCTGCAAATGGCGATGGAGGCCACGGT
GCAGATTGCTGTGTCGGAGCTGGACAGAGACATAGGCCTGCTTGTAAGGGCGTTTTACGTCAGTGATCTCTTGCACCAGG
GGATGCAACTGTTCGATGGTGTTATCCCTGCTGATGCTGCT

Alignment

ORF - retro_taes_134 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 53.41 %
• Parental protein coverage: 72.77 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  MMQIFSLKLANTSYVGDPVELYGYVAVRDLLNPMRNYVFNRTRDDPFIV-GHDGLIQMSGPKRGIRMEAT
          MMQIFSLKLA.....GD.V..YG..AVRD.....RNY.FNRTRDDPFIV...DG.IQ.SGPKRGI.....
Retrocopy MMQIFSLKLAYPP-AGDQVKVYGFMAVRDTRDHLRNYIFNRTRDDPFIVEQEDGFIQLSGPKRGIWWYDK

Parental  VLIE-FDLKIKTGGEECGDLELIDGVAQFSDRGTGHARVITRRLDGDCGSVDITFALLEQASEATIQVGI
          .L...FD..IK.G..E..DL.LIDG...F.D.....ARV.T.R.DGD.GSVDI..ALL..A.EAT.Q...
Retrocopy QLVD<FDMRIKRGENEADDLQLIDGAVWFYDGCSPQARVLTQRIDGDYGSVDISYALLQMAMEATVQIAV

Parental  SEIQQDSCL---SLCLTKFLDGKIQLFDGVITAEAS
          SE...D..L..........L....QLFDGVI.A.A.
Retrocopy SELDRDIGLLVRAFYVSDLLHQGMQLFDGVIPADAA

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_134 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 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	TRAES3BF098800030CFD_g	1 retrocopy	retro_taes_134 ,
Triticum aestivum	Traes_5BL_8D494D60C	3 retrocopies	retro_taes_154, retro_taes_158, retro_taes_227,