RetrogeneDB ID: retro_taes_47

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_210773:26..311(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_001240993
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AS_E714D8C86
• Aliases: None
• Description: None

Sequence

>retro_taes_47
ATGAGCAAAGTGAACAAGGCTCCTCTTTCACTCTCCAAGCTCGTTGAGTTCATGAAGGGCAAGGATGGTAAGATTGCTGT
GTTGGTTGGGACTATCACTGATGATTTGAGAGTGCATGAGATTCCTGCGATGAAGGTTACTGCCTTGAGGTTTACGGAGA
GGGCTAGGGCTAGGATTGAGAAAGCTGGTGGAGAGTGCTTGACCTTTGACCAGCTTGCTCTCGTTGCTCCATTGGGACAG
AACACGGTTCTCCTTAGAGGACCAAAGAACTCTCGTGAAGCGGTG

Alignment

ORF - retro_taes_47 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 78.95 %
• Parental protein coverage: 50.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MSKTNRPPLSMRRLVRFMEGKEDKIAVIVGTITDDQRVYEIPAMKVAALRFTETARARIVNAGGECLTFD
          MSK.N..PLS...LV.FM.GK..KIAV.VGTITDD.RV.EIPAMKV.ALRFTE.ARARI..AGGECLTFD
Retrocopy MSKVNKAPLSLSKLVEFMKGKDGKIAVLVGTITDDLRVHEIPAMKVTALRFTERARARIEKAGGECLTFD

Parental  QLALRAPLGQNTLLLRGPKNAREAV
          QLAL.APLGQNT.LLRGPKN.REAV
Retrocopy QLALVAPLGQNTVLLRGPKNSREAV

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_47 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Musa acuminata	GSMUA_Achr2G01730_001	1 retrocopy	retro_macu_68,
Triticum aestivum	Traes_2AS_E714D8C86	1 retrocopy	retro_taes_47 ,
Vitis vinifera	VIT_07s0005g00690	1 retrocopy	retro_vvin_3,