RetrogeneDB ID: retro_taes_154

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 7A:22900191..22901118(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_8D494D60C
• Aliases: None
• Description: None

Sequence

>retro_taes_154
AGCGAGGAGGACGGATACGCCGTGAATGACGTGCTCGCACAAAGCAGACACCGTGATGGTTCTATATACAGGGGTGTGGA
TTCACTTTGGTGGAAGAGAGAGTATCGTATTGCGGACCGTACAGAGACGCGGCTTGAGGCAATGGCATTGTCAAATCCCA
CGAATTGTGTCGTCCTCGATGGAACTTGCATAACTCATGATGCTTTTAGCATGCTGCAATTTTACTCGGTGGAGTTGGCT
GAAGTTCCCGTGGATGGTGGCTCAGTAGAGCTGTATGGATACATAGCGGTGCGGGATGATATCGATCCGTTGCTTAATTA
TGTCGTCAATATTAGCAGGGATGATCCCATCGTTGTGGAGGAGGGTTCTCTCATCAACATGACTGGCCCTAAGCGAGGGA
CATATATCGCGGATAGTGTTCTAATTGAATATGACATGAGGATCAAGGTAGGTGAAGAAGAAAAATATGACATACAACTG
ATTGATGGTGCATCAATCATTGGCCCTGAAGGCAATTGGAATCGGCCATTCACATTTCGCATCCCTGGTGATGGTGGTGC
GGTCGACATAATTTTATCATGTCTTTTATATGCAGTTGAGGCGACTGTAGAGGTTCCGATATCGGAAGTGCAAAGCAGTT
TCAATTTGTCTATGGAATGTTTAAGCAGTGGGTTTAGTGAGGAAATCCGGCTCTTTGATGGTGCGGTTGCTGAATCATGT
GGCTTAAAGAGGTCTGTGGTTGTTGTATTGAAAAATTCTTCGATAGATTTGGAGTTCAAGGTTGTTGCACTGTCATCCAG
TTCCGACCACCAACATTGTTGTCCTTTCAGGGCTAAAACCCATGGGCATGATACTCAAGAAATAAAGAATGATTTTGTGT
TAATCTCGGTGAAGGTGACTTGGTCGACGTTGCCTGGTAACTTATCT

Alignment

ORF - retro_taes_154 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.32 %
• Parental protein coverage: 64.17 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  SDDEGYSVNGILAKSRHRDGSIYRDMDLYDWKKHYRIADRIETRLEAMTLSDPAANCNVHDGICTRHFAR
          S...GY.VN..LA.SRHRDGSIYR..D...WK..YRIADR.ETRLEAM.LS.P..NC.V.DG.C..H.A.
Retrocopy SEEDGYAVNDVLAQSRHRDGSIYRGVDSLWWKREYRIADRTETRLEAMALSNPT-NCVVLDGTCITHDAF

Parental  SMLQIYSLELAKIPVDG-LVELYGYVAVRDDLDPLLNYVVNISRDDPVIVEQGSLINMIGPKRGIDMADH
          SMLQ.YS.ELA..PVDG..VELYGY.AVRDD.DPLLNYVVNISRDDP..VE.GSLINM.GPKRG...AD.
Retrocopy SMLQFYSVELAEVPVDGGSVELYGYIAVRDDIDPLLNYVVNISRDDPIVVEEGSLINMTGPKRGTYIADS

Parental  ALLEYDMKIKSGEQEKNDLQLIDGASFIGPLGSWDQPCTFHIAGDCGSVDITLSRLLKAVEATVEVLILE
          .L.EYDM.IK.GE.EK.D.QLIDGAS.IGP.G.W..P.TF.I.GD.G.VDI.LS.LL.AVEATVEV.I.E
Retrocopy VLIEYDMRIKVGEEEKYDIQLIDGASIIGPEGNWNRPFTFRIPGDGGAVDIILSCLLYAVEATVEVPISE

Parental  VKSSFSLSVGCLASGFNEEIQLFDGTIADSQGLKRSVVAVMKNSSIDLKFKVGALSSSSD-QHCCSFKAK
          V.SSF.LS..CL.SGF.EEI.LFDG..A.S.GLKRSVV.V.KNSSIDL.FKV.ALSSSSD.QHCC.F.AK
Retrocopy VQSSFNLSMECLSSGFSEEIRLFDGAVAESCGLKRSVVVVLKNSSIDLEFKVVALSSSSDHQHCCPFRAK

Parental  MHGHDIEEIKTDFALILVKVIWSTLPRGFS
          .HGHD..EIK.DF.LI.VKV.WSTLP...S
Retrocopy THGHDTQEIKNDFVLISVKVTWSTLPGNLS

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_154 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.

---

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,