RetrogeneDB ID: retro_taes_179

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8022176:3528..3936(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4DL_B0BD66142
• Aliases: None
• Description: None

Sequence

>retro_taes_179
GTCGGCTTCATCAAGCTGCAAGTGCCAGCTGGTAAGGCCAACCCGTCCCCCCCGATTGGCCCGGCTTTGGGTCAGCGCGG
CTTGAACATCATGGAGTTCTGCAAGGCATTTAATGCCCAGACCCAGGGTGTCGAGCCGGGTCTGCCGCTTCCCGTGGTGA
TCACGGCATTTGCCGACAAGAGCTTTACCTTTGTCATCAAGACGCCTCCCGCAGGTGTGCTGATCAAAAAGGCCATCAAG
CTCGACAAGGGTTCTGCGACACCGCACACGGTGAAAGTTGGCAAGATCTCCCGCGCACAGCTTGAAGAAATTGCCAAGAC
CAAAATGAAAGACATGACGGCTGCTGACCTCGACGCTGCAGTTCGCACGATTGCTGGTACGGCCCGCTCCATGGGCGTGT
CGGTGGAG

Alignment

ORF - retro_taes_179 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 51.47 %
• Parental protein coverage: 63.98 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGIIKLALEAGKATPAPPVGPALGAKGVNIMAFCKDYNAKTAD-KPGYIIPVEITVFDDKSFTFILKTPP
          VG.IKL...AGKA.P....GPALG..G.NIM.FCK..NA.T....PG...PV.IT.F.DKSFTF..KTPP
Retrocopy VGFIKLQVPAGKANPXXXIGPALGQRGLNIMEFCKAFNAQTQGVEPGLPLPVVITAFADKSFTFVIKTPP

Parental  ASVLLLKAAGVEKGSKEPQREKVGKVTVDQVRTIAQEKLPDLNCKTIESAMRIIAGTAANMGIDVD
          A.VL..KA....KGS..P...KVGK....Q...IA..K..D........A.R.IAGTA..MG..V.
Retrocopy AGVLIKKAIKLDKGSATPHTVKVGKISRAQLEEIAKTKMKDMTAADLDAAVRTIAGTARSMGVSVE

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_179 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 1 parental gene, and 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_4DL_B0BD66142	1 retrocopy	retro_taes_179 ,