RetrogeneDB ID: retro_taes_46

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DS_scaff_1933637:2..746(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DS_9DF6586C9
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_DBC5D12AB
• Aliases: None
• Description: None

Sequence

>retro_taes_46
ACTCAAGCCTCGGCCTCGATATTCAGACCATGCACTTCAAAGCCAAGATTCCTCACCGGTTCTTCCGGTAGGTTGAACCG
AGATTTGTCGTTTAAGTCGATCGGCTCATCATCCTCAAAGACGGCCTCGTTCAAGGTTGAAGCTAAGAAAGGAGAATGGT
TACCCGGTTTGGCATCTCCTGGTTACCTCAACGGCAGTCTTGCCGGGGACAATGGGTTTGACCCATTGGGACTTGCAGAG
GATCCGGAGAACTTGAAGTGGTTCATCCAGGCAGAGCTTGTCAACGGACGGTGGGCCATGCTTGGCGTTGCAGGGATGCT
TTTGCCGGAAGTTTTCACCAAGATCGGAATCATCAACGTTCCTGAGTGGTATGATGCTGGAAAAGAGCAGTATTTTGCAT
CATCATCGACATTGTTCGTGATCGAATTCATATTGTTTCATTACGTTGAGATCAGACGGTGGCAAGACATTAAGAACCCA
GGAAGTGTGAACCAAGACCCTATCTTCAAGCAATACAGCTTGCCTCCAAATGAAGTTGGTTACCCTGGAGGAATCTTTAA
CCCGCTTAACTTCGCTCCTACGCTCGAGGCCAAGGAGAAAGAGCTTGCAAACGGGAGGTTGGCTATGTTGGCATTCTTAG
GGTTCGTGATTCAACACAATGTGACTGGAAAGGGTCCATTTGAGAACCTCTTGCAGCACCTGTCTGACCCATGGCACAAC
ACCATTGTCCAAACCTTCAGCTGA

Alignment

ORF - retro_taes_46 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 81.78 %
• Parental protein coverage: 86.94 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGLAKSTRRDVAVQAK-GSWLPGLPSPAYLDGSLAGDNGFDPLALAEDPEDLRWFVQAELVNGRWAMLGV
          .G...S......V.AK.G.WLPGL.SP.YL.GSLAGDNGFDPL.LAEDPE.L.WF.QAELVNGRWAMLGV
Retrocopy IGSSSSKTASFKVEAKKGEWLPGLASPGYLNGSLAGDNGFDPLGLAEDPENLKWFIQAELVNGRWAMLGV

Parental  AGMLIPEVLTKAGLLNAPEWYDAGKETYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKSYS
          AGML.PEV.TK.G..N.PEWYDAGKE.YFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFK.YS
Retrocopy AGMLLPEVFTKIGIINVPEWYDAGKEQYFASSSTLFVIEFILFHYVEIRRWQDIKNPGSVNQDPIFKQYS

Parental  LPPHECGYPGSVFNPLNFAPTLENKEKELANGRLAMLAFLGFLVQHNVTGKGPFENLQQHLADPWHNTII
          LPP.E.GYPG..FNPLNFAPTLE.KEKELANGRLAMLAFLGF..QHNVTGKGPFENL.QHL.DPWHNTI.
Retrocopy LPPNEVGYPGGIFNPLNFAPTLEAKEKELANGRLAMLAFLGFVIQHNVTGKGPFENLLQHLSDPWHNTIV

Parental  QTIS
          QT.S
Retrocopy QTFS

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_46 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_5BL_DBC5D12AB	1 retrocopy	retro_taes_46 ,