RetrogeneDB ID: retro_taes_29

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 5B:57180424..57181474(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_5BL_1A9D2AC10
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF069100050CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_29
ATGTCGATGGCGCAGGTGTGCTGTGACTCGGCCTCGTCGGCGGTGGTGGTCGGGGCGGAGGCGGAGGCCAGGGCCAGGGC
GCGCGCCGGGAGGCGCCGCAGGGCGGGGGACGCGGCGGCCAGGTGGAAGGTCACCGCGGAGGCGCCGCAGGGAGCCGACG
AGGCCGCGGCCACGAGGAAGCGCCGCGCGGCTGGGGGCGAGGGGGTGGCCGCGAAACGCCACGGGTTCACGTCGGTTGCC
GGACGGAGGAGGGAGATGGAGGATGCCGTCTCCATACGGGAGGCCTTCACCGCCCCGGCCGAGGAGGGGAAGCCCAGGCG
CGACTTCTACGGCGTTTTCGACGGACACGGCTGCTCGCACGTGGCGGACGCGTGCAAAGACCGGATGCACGAGCTCGTCG
CCGAGGAGCTGGCCGGCGCGGCCCAGCCCGAGTCCTGGACCGCCGCAATGGAGCGCAGCTTCGCGAGGATGGACGCCGAG
GTGACCGCCAGCGGGGGCGGCGACAGCGCCAGCTGCCGCTGCGAGGCCAACAAGTGCGACCACGTGGGGTCCACGGCCGT
GGTGGCCGTCGTGGGGGAGCAGCGCGTCCTGGTGGCCAACTGCGGCGACTCCCGCGCCGTGCTCTGCCGCGACGGCGCGC
CCGTCGTCCTCTCCTCCGACCACAAGCCAGACAGGCCGGACGAGCTGGAGAGGATCGAGGCCGCCGGCGGCCGCGTCATA
TTCTGGGAGGGCGCGAGGGTGCTGGGCGTCCTAGCCATGTCACGGGCCATCGGCGACGGCTATCTGAAGCCGTTCGTGAC
GGCGGTCCCGGAGGTGACGGTGACCGACAGGGCGGCCGGCGACGAGTGCCTGATCCTGGCCAGCGACGGTCTGTGGGACG
TGGTCAACAACGAGACGGCGTGCGAGGTAGCCCGGGCCTGCCTCCGGAGGGGCAGAGACAGGTGGTGCGCCGAGGCAGCG
GCCATGCTCACCAAGCTGGCTCTGACCAAGAACAGCTCGGACAACATCTCCGTTGTCGTCGTGGATCTCCGGCCAAGGAA
TCATTTGTAG

Alignment

ORF - retro_taes_29 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 67.44 %
• Parental protein coverage: 54.16 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GSGKSHFFGVFDGHGCSHVATTCQELMHEAVAEEHEKAGPGEEPTWKEVMERSFARLDERAANWATTRSS
          G.....F.GVFDGHGCSHVA..C...MHE.VAEE...AG......W...MERSFAR.D...A........
Retrocopy GKPRRDFYGVFDGHGCSHVADACKDRMHELVAEE--LAGAAQPESWTAAMERSFARMD---AEVTASGGG

Parental  EEPACRCEQKMPSRCDHVGSTAVVAVVSPTQLVVANAGDSRAVLSRAGVPVALSVDHKPDRPDELERIQA
          ....CRCE......CDHVGSTAVVAVV......VAN.GDSRAVL.R.G.PV.LS.DHKPDRPDELERI.A
Retrocopy DSASCRCEA---NKCDHVGSTAVVAVVGEQRVLVANCGDSRAVLCRDGAPVVLSSDHKPDRPDELERIEA

Parental  AGGRVIYWDGARVLGVLAMSRAIGDGYLKPFVTAEPEVTVTERSDADECLILASDGLWDVVTNEMACDVA
          AGGRVI.W.GARVLGVLAMSRAIGDGYLKPFVTA.PEVTVT.R...DECLILASDGLWDVV.NE.AC.VA
Retrocopy AGGRVIFWEGARVLGVLAMSRAIGDGYLKPFVTAVPEVTVTDRAAGDECLILASDGLWDVVNNETACEVA

Parental  RACFR
          RAC.R
Retrocopy RACLR

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_29 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 2 parental genes, and 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Brachypodium distachyon	BRADI2G54810	1 retrocopy	retro_bdis_10,
Triticum aestivum	TRAES3BF069100050CFD_g	1 retrocopy	retro_taes_29 ,