RetrogeneDB ID: retro_taes_83

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8021052:222..1080(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_2BL_0FB524181
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4AS_C67AE6944
• Aliases: None
• Description: None

Sequence

>retro_taes_83
ATGCTTCCCCACGGCCCCACTCGTCTGACTCTGACCCCGACCTCACCTCTCCCCACCCCGCCGTCTCGGTCTCACCTCGC
CGCGCCGAGACCCAATCCCCTAAACCCGGCCCCAAACCCTAGCGCCGCCGCCATGCTGCGCCGACTCGCCTCCGCCGCCG
CCCCGCGGGCCTTCTTCTCGACCTCCCCGGCTGCGGGCCACGCCCCGCGCCGCGAGTACGGGCTGGTCCCCATGGTGATC
GAGCACACCTCCCGCGGGGAGCGCGCCTACGACATCTTCTCGCGTCTCCTCAAGGAGCGCATCGTCTGCATCCACGGGCC
CATCGCCGACGACACGGCCTCGCTCGTCGTCGCGCAGCTGCTCTTCCTCGAGTCCGAGAACCCCGCCAAGCCGATCCACC
TCTACATCAACTCCCCCGGCGGGGTCGTCACCGCGGGCCTCGCGATCTACGACACGATGCAGTACATCCGCTCCCCGGTC
ACCACGCTCTGCATCGGCCAGGCCGCCTCCATGGGCTCGCTGCTGCTCGCCGCGGGCGCGCCCGGCGAGCGGCGCGCGCT
GCCCAACGCCCGGGTTATGATCCACCAGCCGTCGGGCGGTGCCTCCGGGCAGGCCTCCGACATTGCGATCCAGGCCAAGG
AGATCCTCAAGGTGCGCGACCGCCTCAACAAGATCTACGCCAAGCACACTGGCCAGGCCATCGACCGCATCGAGCAGTGT
ATGGAGAGGGACATGTTTATGGACCCAGTGGAGGCGCAAGCCTGGGGGCTCATCGATGAGGTCATCGAGCACCGCCCAAT
TTCACTCGTTTCTGATGCCGTGAGCAGTGATCCGCCGAAGAACGGCGGAGGAGGGGAA

Alignment

ORF - retro_taes_83 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 52.84 %
• Parental protein coverage: 62.41 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  ERFQSVVSQLFQHRIIRCGGPVEDDMANVIVAQLLYLDAVDPNKDIIMYVNSPGGSVTAGMAIFDTMKHI
          ER.....S.L...RI....GP..DD.A...VAQLL.L....P.K.I..Y.NSPGG.VTAG.AI.DTM..I
Retrocopy ERAYDIFSRLLKERIVCIHGPIADDTASLVVAQLLFLESENPAKPIHLYINSPGGVVTAGLAIYDTMQYI

Parental  RPDVSTVCIGLAASMGAFLLSGGTKGKRYSLPNSRIMIHQPLGGAQGQETDLEIQANEMLHHKANLNGYL
          R..V.T.CIG.AASMG..LL..G..G.R..LPN.R.MIHQP.GGA.GQ..D..IQA.E.L.....LN...
Retrocopy RSPVTTLCIGQAASMGSLLLAAGAPGERRALPNARVMIHQPSGGASGQASDIAIQAKEILKVRDRLNKIY

Parental  AYHTGQPLDKINVDTDRDFFMSAKEAKEYGLIDGVI
          A.HTGQ..D.I.....RD.FM...EA...GLID.VI
Retrocopy AKHTGQAIDRIEQCMERDMFMDPVEAQAWGLIDEVI

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_83 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 4 parental genes, and 4 retrocopies.

Species	Parental gene accession	Retrocopies number
Amborella trichopoda	AMTR_s00045p00165520	1 retrocopy	retro_atri_13,
Oryza brachyantha	OB03G24650	1 retrocopy	retro_obra_19,
Oryza glaberrima	ORGLA03G0142400	1 retrocopy	retro_ogla_20,
Triticum aestivum	Traes_4AS_C67AE6944	1 retrocopy	retro_taes_83 ,