RetrogeneDB ID: retro_taes_158

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 7B:5488793..5489690(+)
• 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_158
ATTCTCGCAAAAAGCAGACATCGTGATGGTTCTATATACAGTGATGTGGATTTACTTTGGTGGAAGAAAGAGTACCGTAT
TGCCGACCGTAACGAGAGCCGGCTCGAGGCGATGTCATTGTCGGATCCCACGGATTGTGTCGTCCGTGATGGAACTTGCA
TGACTCATGATCCTTTTAGCATGCTGCAATTTTACTCGGTGGAGTTGGCTGAAATTCCCGTGGATGGTGGCTTAGTAGAG
CTGTATGGGTACATAGCGGTGCGGGATGATATCGATTCATTGCTTAATTATGTCATCAATATCAGCAGGGATGATCCCAT
CGTTGTGGAGGAGGGTTCTCTTATCAACATGACTGGCCCTAAGCGAGGGATAGATATGGCGGATAGTGTTCTAATTGAAC
ATGACATGAGGATCAAGGCAGGTGAAGAAGAAAAAGATGACATACAATTGATCGATGGTGCATCACTCATAGCCCACGAA
GGCAAATGGGATCAGCCATTCACATTTCGCATTCCCGGTGATGGTGGTGCGGTTGACATAATTTTATCATGTCTTTTATA
TGCAGTTGAGGCGACTGTAGAGGTTCTTATCTCGGAAGTGCAAAGCAGTTTCAATTTGTCTGTCGGATGTTTAAGCAGTG
GGTTTAATGAGGAAATCCGGCTCTTTGACGGTGCGGTTGCTGAATCATGTAGCTTAAAGAGGTCTGTGGTTGCTGTATTG
AAAAATTCTTCGATAGATTTGAAGTTCAAGGTTGCTGCACTGTCATCCAGTTCTGACCACCAACATTGTTGTTCTTTCAA
GGCTAAAACCCATGGGCATGATAATCAAGAAATAAAGAATGATTTTGTGATAATCTCGGTGAAGTTGACTTGGTCAACGT
TGCCTGGTAGCTTTTCT

Alignment

ORF - retro_taes_158 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 74.33 %
• Parental protein coverage: 62.08 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ILAKSRHRDGSIYRDMDLYDWKKHYRIADRIETRLEAMTLSDPAANCNVHDGICTRHFARSMLQIYSLEL
          ILAKSRHRDGSIY.D.DL..WKK.YRIADR.E.RLEAM.LSDP...C.V.DG.C..H...SMLQ.YS.EL
Retrocopy ILAKSRHRDGSIYSDVDLLWWKKEYRIADRNESRLEAMSLSDPT-DCVVRDGTCMTHDPFSMLQFYSVEL

Parental  AKIPVDG-LVELYGYVAVRDDLDPLLNYVVNISRDDPVIVEQGSLINMIGPKRGIDMADHALLEYDMKIK
          A.IPVDG.LVELYGY.AVRDD.D.LLNYV.NISRDDP..VE.GSLINM.GPKRGIDMAD..L.E.DM.IK
Retrocopy AEIPVDGGLVELYGYIAVRDDIDSLLNYVINISRDDPIVVEEGSLINMTGPKRGIDMADSVLIEHDMRIK

Parental  SGEQEKNDLQLIDGASFIGPLGSWDQPCTFHIAGDCGSVDITLSRLLKAVEATVEVLILEVKSSFSLSVG
          .GE.EK.D.QLIDGAS.I...G.WDQP.TF.I.GD.G.VDI.LS.LL.AVEATVEVLI.EV.SSF.LSVG
Retrocopy AGEEEKDDIQLIDGASLIAHEGKWDQPFTFRIPGDGGAVDIILSCLLYAVEATVEVLISEVQSSFNLSVG

Parental  CLASGFNEEIQLFDGTIADSQGLKRSVVAVMKNSSIDLKFKVGALSSSSD-QHCCSFKAKMHGHDIEEIK
          CL.SGFNEEI.LFDG..A.S..LKRSVVAV.KNSSIDLKFKV.ALSSSSD.QHCCSFKAK.HGHD..EIK
Retrocopy CLSSGFNEEIRLFDGAVAESCSLKRSVVAVLKNSSIDLKFKVAALSSSSDHQHCCSFKAKTHGHDNQEIK

Parental  TDFALILVKVIWSTLPRGFS
          .DF..I.VK..WSTLP..FS
Retrocopy NDFVIISVKLTWSTLPGSFS

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_158 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,