RetrogeneDB ID: retro_taes_87

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_2271219:2..740(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_FD243828E
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AS_B86EFFF66
• Aliases: None
• Description: None

Sequence

>retro_taes_87
ATGGCTTCTCTTTGTGCTTCCTCTGCCATCGCCGCCATTTCTTCTCCTAGTTTCTTGTGTGGCAAGAAGCTAAGGCTGAA
CAAGAAGCTGAGTGTTGCAGCTGTTTCCAAATCAGCTGCGTCTGTGCGGGCCGTTGCAGCGGATCCCGAGAGACCAATCT
GGTTCCCTGGAAGCACTCCTCCAGAGTGGCTCGACGGTAGCCTCCCTGGTGACTTCGGATTTGATCCTCTTGGTCTTTCA
TCTGACCCGGATAGTCTAAAATGGAACGTACAAGCCGAGATAGTTCACTGCCGGTGGGCAATGCTAGGTGCCGCCGGAAT
TTTTATCCCGGAGTTTCTAACCAAGATCGGGATCCTCAACACGCCTTCGTGGTACACTGCCGGAGAGCAAGAGTATTTCA
CGGACAAAACCACACTCTTTGTCGTTGAGCTCATCTTAATAGGATGGGCCGAGGGACGTAGATGGGCCGATATCATTAAG
CCCGGTAGCGTCAACACTGACCCAATCTTCCCAAACAACAAACTGACGGGCACAGACGTTGGATACCCGGGTGGGTTATG
GTTCGACCCGTTGGGTTGGGGATCCGGTAGCCCGGCTAAGATCAAGGAGCTGAGGACTAAAGAGATCAAGAACGGAAGGT
TGGCTATGTTGGCAGTGATGGGTGCTTGGTTCCAACATATCTACACTGGGACTGGTCCTATTGATAACCTTTTTGCACAT
CTTGCTGATCCTGGCCAT

Alignment

ORF - retro_taes_87 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 79.67 %
• Parental protein coverage: 94.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VSSSSAATAVAALPSNGLAGARSSFLGAAGKAAAASRASFAVRAAA--PERPIWFPGSTPPPWLDGSLPG
          ..S..A..A.AA..S..........L......AA.S.....VRA.A..PERPIWFPGSTPP.WLDGSLPG
Retrocopy MASLCASSAIAAISSPSFLCGKKLRLNKKLSVAAVSKSAASVRAVAADPERPIWFPGSTPPEWLDGSLPG

Parental  DFGFDPWGLGSDPESLRWNVQAELVHCRWAMLGAAGIFIPELLTKIGILNTPSWYTAGEQEYFTDTTTLF
          DFGFDP.GL.SDP.SL.WNVQAE.VHCRWAMLGAAGIFIPE.LTKIGILNTPSWYTAGEQEYFTD.TTLF
Retrocopy DFGFDPLGLSSDPDSLKWNVQAEIVHCRWAMLGAAGIFIPEFLTKIGILNTPSWYTAGEQEYFTDKTTLF

Parental  IVELILIGWAEGRRWADIIKPGCVNTDPIFPNNKLTGTDVGYPGGLWFDPLGYGTGSPEKLKELRTKEIK
          .VELILIGWAEGRRWADIIKPG.VNTDPIFPNNKLTGTDVGYPGGLWFDPLG.G.GSP.K.KELRTKEIK
Retrocopy VVELILIGWAEGRRWADIIKPGSVNTDPIFPNNKLTGTDVGYPGGLWFDPLGWGSGSPAKIKELRTKEIK

Parental  NGRLAMLAVMGAWFQAEYTGTGPIDNLFAHLADPGH
          NGRLAMLAVMGAWFQ..YTGTGPIDNLFAHLADPGH
Retrocopy NGRLAMLAVMGAWFQHIYTGTGPIDNLFAHLADPGH

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_87 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_2AS_B86EFFF66	1 retrocopy	retro_taes_87 ,
Triticum aestivum	Traes_7AS_DC51A1D61	1 retrocopy	retro_taes_206,