RetrogeneDB ID: retro_taes_43

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_2265955:47..494(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_2ABE97FD8
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DS_01A0AF589
• Aliases: None
• Description: None

Sequence

>retro_taes_43
ATGCTTGCCACAGGGACAGGAATAGCTCCTTTCAGGTCTTTCTTGTGGAAGATGTTCTTCGAGAAACATGATGACTACAA
GTTTAATGGCTTAGCTTGGCTGTTCTTGGGTGTACCAACCACTAGCTCATTGCTCTACACAGAGGAGTTTGATAAGATGA
AAGCAAAGGCACCTGAGAATTTCAGGGTTGATTACGCTATAAGCAGAGAAGAAACTAACGACAAAGGAGAGAAAATGTAT
ATCCAGACCAGAATGGCGCAGTACGCACCAGAGTTATGGGAGTTGTTGAAGAAAGACAACACGTTTGTCTACATGTGTGG
GCTCAAGGGCATGGAGAAAGGAATTGATGACATTATGGTCTCATTAGCTGCTAATGACGGCATTGACTGGTTTGATTATA
AGAAGCAGTTGAAGAAGGCAGAGCAATGGAACGTTGAAGTCTACTGA

Alignment

ORF - retro_taes_43 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 85.81 %
• Parental protein coverage: 92.5 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLATGTGIAPFRSFLWKMFFEKYEDYKFNGLAWLFLGVPTSSSLLYPEEFGKMKAKAPDNFRVDYAISRE
          MLATGTGIAPFRSFLWKMFFEK..DYKFNGLAWLFLGVPT.SSLLY.EEF.KMKAKAP.NFRVDYAISRE
Retrocopy MLATGTGIAPFRSFLWKMFFEKHDDYKFNGLAWLFLGVPTTSSLLYTEEFDKMKAKAPENFRVDYAISRE

Parental  ETNAAGEKMYIQTRMAEYKDELWELLKKDNTYVYMCGLKGMEKGIDEIMIPLASKEGIDWIDYRKQLKKS
          ETN..GEKMYIQTRMA.Y..ELWELLKKDNT.VYMCGLKGMEKGID.IM..LA...GIDW.DY.KQLKK.
Retrocopy ETNDKGEKMYIQTRMAQYAPELWELLKKDNTFVYMCGLKGMEKGIDDIMVSLAANDGIDWFDYKKQLKKA

Parental  EQWNVEVY
          EQWNVEVY
Retrocopy EQWNVEVY

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_43 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_7DS_01A0AF589	2 retrocopies	retro_taes_33, retro_taes_43 ,