RetrogeneDB ID: retro_taes_1

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4BS_scaff_2673400:456..1500(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4BS_96AE357C6
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4DL_21C202E37
• Aliases: None
• Description: None

Sequence

>retro_taes_1
ATGCTTCCCATGGTCGACGACCCCTCCGCCGCCGGCGCCGCTGCGTCCTCCTCCTTCCCTGACGCCGACGCCTATGGCAA
CGGGGACTCTGAAGATATCGACTTCCCAGTCGATCCAATCCCCAACCCTCCCTTCTCCTCTGCTCCCGTCGCCGCCCCCG
CCTCCGCCACGGCCACGGTCGGGGAGCGGCGGCCCCTGTTCCAGCGGCTATGGACGGAGGAGGATGAGATCGTGATCCTA
CGCGCGTTCGCCGAGTTCACGGCGCAGCGGGGCACGGCGTTCGCGTCCCACCAGTACGACACGGAACCCTTCTACGAGGA
GATGCGCCGCCGCCTCCAGCTCGATTTCTCCAAGAGCCAGCTCGCCGAGAAGCTTCGCCGCCTTAAGCGCAAGTACCGCA
ACTGCGTCGAGCGCCTCCGTTGCTCCGGCAACACATTCTCCTTCCGCTCCCCTCACGAGCAGGCCGTCTTCGAGATCGCT
CGCAACATCTGGCGCCCCTCCTCCGACAAGCACGGCCGCGACCCCAACGCCGCTGACTCTGAAGACGACGCCACAATCAC
CGCCACGAATGCCGCAGCCAACGGAGACGCCAAGTCCCCGTCCTCCTCAAAGGCGCATCGCCGCGGCCGCCGCAGGCGCA
CGGCTGACTTGGCTGCCGATGCGTCCGAGGCGCCCCAGCCGTACACGTCGGGGCCCATGCCTGTCAAGACAGAGGACTCG
CTGCCGGCATTCTTTCCTCATGTCTCCATGGACGGTGCTGAGCCTGTTGTGGCGCCAGTGGTGAACACGGAGAGCAGCGT
CCTGACGCCTCTGTTCAAGGAAATGGTCCGTGCCATGCTAGGCATCGGCGGCTGCCCGTCACCGCTGGGCCTGGGAGCGA
AGGTGCCGGAGCAACCGTCTGCAATTCTCGGGATACCTATGGAGGGGGAGAAGTGGAGGCAGCAGAGGATTCTGGAGCTG
GAGGTGTACCTGCGGCGGATCGACCTGCTGCAGGACGAGGTGAAGTCGGCACTGGAGGAGCTAAAATCCACGCCGCCATC
CTGA

Alignment

ORF - retro_taes_1 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 97.98 %
• Parental protein coverage: 100. %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MLPMVDDPSAAGAAASSSFPDADAYGNGDSEDIDFPVDPIPNPPFSAGP--PPASATATVGERRPLFQRL
          MLPMVDDPSAAGAAASSSFPDADAYGNGDSEDIDFPVDPIPNPPFS..P...PASATATVGERRPLFQRL
Retrocopy MLPMVDDPSAAGAAASSSFPDADAYGNGDSEDIDFPVDPIPNPPFSSAPVAAPASATATVGERRPLFQRL

Parental  WTEEDEIVILRAFAEFTAQRGTAFASHQYDTEPFYEEMRRRLQLDFSKSQLAEKLRRLKRKYRNCVERLR
          WTEEDEIVILRAFAEFTAQRGTAFASHQYDTEPFYEEMRRRLQLDFSKSQLAEKLRRLKRKYRNCVERLR
Retrocopy WTEEDEIVILRAFAEFTAQRGTAFASHQYDTEPFYEEMRRRLQLDFSKSQLAEKLRRLKRKYRNCVERLR

Parental  CSGNTFSFRSPHEQAVFEIARNIWRPSSDKHGRDPNAADSEDDATITATNAAANGDAKSPSSSKAHRRGR
          CSGNTFSFRSPHEQAVFEIARNIWRPSSDKHGRDPNAADSEDDATITATNAAANGDAKSPSSSKAHRRGR
Retrocopy CSGNTFSFRSPHEQAVFEIARNIWRPSSDKHGRDPNAADSEDDATITATNAAANGDAKSPSSSKAHRRGR

Parental  RRRTADLAADASEAPQPYTSGPMPVKTEDSLPAFFPHVSMDGAEPVVAPVVNTESSVLTPLFKEMVRAML
          RRRTADLAADASEAPQPYTSGPMPVKTEDSLPAFFPHVSMDGAEPVVAPVVNTESSVLTPLFKEMVRAML
Retrocopy RRRTADLAADASEAPQPYTSGPMPVKTEDSLPAFFPHVSMDGAEPVVAPVVNTESSVLTPLFKEMVRAML

Parental  GIGGCPSPLGLGAKVPEQPSAILGIPMDGEKWRQQRILELEVYLRRIDLLQDEVKSALEELKSTPPT
          GIGGCPSPLGLGAKVPEQPSAILGIPM.GEKWRQQRILELEVYLRRIDLLQDEVKSALEELKSTPP.
Retrocopy GIGGCPSPLGLGAKVPEQPSAILGIPMEGEKWRQQRILELEVYLRRIDLLQDEVKSALEELKSTPPS

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_1 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_21C202E37	1 retrocopy	retro_taes_1 ,