RetrogeneDB ID: retro_taes_74

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_282792:1..280(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_F1C77E7B0
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_3AS_719D37CCA
• Aliases: None
• Description: None

Sequence

>retro_taes_74
AGAAAACATAATGCTGGAACGAACAAGGCGGCCTCAAGCGGCACCTCCTTGAACACCAAGAGGCTTGATGATGACACTGA
GAACTTAGCTCATGAACGTGTGCCTACTGAGTTGAAGAAAGCCATCATGCAAGCCCGTGGGGAGAAGAAGCTCACCCAGT
CCCAGCTCGCTCAATTGATCAATGAGAAGCCGCAAGTGATCCAAGAGTACGAGTCTGGGAAAGCAATACCGAACCAGCAG
ATCCTTATTAAGCTGGAGAGGGCGCTTGGAGCTAAACTC

Alignment

ORF - retro_taes_74 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 87.1 %
• Parental protein coverage: 65.49 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  KKHNAGTNKAAHSTTSLNTKRLDDDTENLAHERVPSDLKKSIMQARTDKKLTQAQLAQLINEKPQVIQEY
          .KHNAGTNKAA.S.TSLNTKRLDDDTENLAHERVP..LKK.IMQAR..KKLTQ.QLAQLINEKPQVIQEY
Retrocopy RKHNAGTNKAASSGTSLNTKRLDDDTENLAHERVPTELKKAIMQARGEKKLTQSQLAQLINEKPQVIQEY

Parental  ESGKAIPNQQIIGKLERALGTKL
          ESGKAIPNQQI..KLERALG.KL
Retrocopy ESGKAIPNQQILIKLERALGAKL

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_74 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 10 parental genes, and 10 retrocopies.

Species	Parental gene accession	Retrocopies number
Brachypodium distachyon	BRADI2G06560	1 retrocopy	retro_bdis_21,
Medicago truncatula	MTR_2g084220	1 retrocopy	retro_mtru_80,
Populus trichocarpa	POPTR_0001s40090	1 retrocopy	retro_ptri_9,
Physcomitrella patens	PP1S96_94V6	1 retrocopy	retro_ppat_19,
Prunus persica	PRUPE_ppa013074mg	1 retrocopy	retro_pper_2,
Arabidopsis lyrata	scaffold_503053.1	1 retrocopy	retro_alyr_11,
Solanum lycopersicum	Solyc10g007350.2	1 retrocopy	retro_slyc_40,
Theobroma cacao	TCM_001730	1 retrocopy	retro_tcac_24,
Triticum aestivum	Traes_3AS_719D37CCA	1 retrocopy	retro_taes_74 ,
Vitis vinifera	VIT_12s0028g02020	1 retrocopy	retro_vvin_6,