RetrogeneDB ID: retro_taes_38

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 5B:189056595..189057636(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_5BL_8E0EA70D9
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AL_D3D671F67
• Aliases: None
• Description: None

Sequence

>retro_taes_38
CCACATTCATTTATTAATCGAACGGATGCATGGTGTAGGAAGGACTACGTGGACTTCAGCGACGTTTGCTACAACGAGTT
CGGCGACCGGGTGAAGCACTGGACCACCTTCAACGAGCCATGGACGTACAGCACCTACGGCTACGCCACCGGCGTGTTCG
CGCCGGGGCGGTGCTCGCCGCACGTCTCCGCCTCCTGCGGCGCCCGCGACTCGGCCCGGGAGCCCTACATCGTGACGCAC
AACATCCTGCTGGCGCACGCCGCCACCGTGGAGCTGTACCGGCGCAAGTACCAGAAGGCGCAGGGCGGCGAGGTCGGCAT
CACGCTGGTGTGCCACTGGTACCTCCCCTACACCAACTCCACCGCCGATAAGGAGGCCGCCAAGCGCCGGGTGGAGTTCA
TGCTGGGCTGGTTCATGGACCCCATCGTGCACGGCGACTACCCGGCGTCCATGAGGAGCTGGCTCGGCGCCCGGCTGCCG
AGCTTCACCCCGAAGCAGAAGGCCATGCTCAAGGGGTCCTACGACTTCTTCGGCCTCAACTACTACACCACCTACTACGC
CATCGCCACGCCCGCACCGGCCAACGCCCTCCTTGGGTCCTACGACGCCGACAACCGCTCCAACGTCACCGGCTTCCGCA
ACGGCAGGCCCCTCGGCCCGCAGGCCTACACCGAGTTTCTCTTCGTCTACCCGCCGGGTATCCACGAGCTCATGCTCTAT
GCAAAGCGCAAGTACGGGAACCCCGCCATCTACGTCATGGAGAACGGCATCGACGAGGGCAACAACAGCTCGCTGCCCAT
CAGGGAGGCGCTCAAGGACCCCGCCAGGATCAACTACCACTACAAGCACCTCCTCTTCCTCAACCTCGCCATCAAGCAGA
AGGTGAACATCAAGGGTTACTTCTCGTGGACGTTCATGGACTGCTTCGAGTGGGGTGACGGCTACAAGGACCGCTTCGGC
CTCATCTACATCGACCGCAACACGCTCAAGCGCTACCCCAAGGAGTCCAGCAAATGGATGGGCAGATTCCTCAAGAAATG
A

Alignment

ORF - retro_taes_38 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.26 %
• Parental protein coverage: 73.45 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DYKDYAEVCFREFGDRVKHWITFNEPWSFCVTGYERGVFAPGRCSPWEKANCSAGDSGREPYTAAHHQIL
          DY.D...VC..EFGDRVKHW.TFNEPW.....GY..GVFAPGRCSP...A.C.A.DS.REPY...H...L
Retrocopy DYVDFSDVCYNEFGDRVKHWTTFNEPWTYSTYGYATGVFAPGRCSPHVSASCGARDSAREPYIVTHNILL

Parental  AHAAAARLYKQKYKAVQKGKIGISLVSNWFTPLSRSKSSVIATRRAIEFMLGWFLDPLARGDYPGSMKEL
          AHAA...LY..KY...Q.G..GI.LV..W..P...S.....A..R..EFMLGWF.DP...GDYP.SM...
Retrocopy AHAATVELYRRKYQKAQGGEVGITLVCHWYLPYTNSTADKEAAKRRVEFMLGWFMDPIVHGDYPASMRSW

Parental  VGNRLPRFTKKQSKLVKGSFDFIGINYYTTNYADSLPL-SNGLRNSYSTDAQANLTGVRNGVPIGPQAAS
          .G.RLP.FT.KQ....KGS.DF.G.NYYTT.YA...P...N.L..SY..D...N.TG.RNG.P.GPQA..
Retrocopy LGARLPSFTPKQKAMLKGSYDFFGLNYYTTYYAIATPAPANALLGSYDADNRSNVTGFRNGRPLGPQAYT

Parental  PWLYVYPKGFHDLLLYLKEKYRNPLVYITENGVDEANNKSLPLEEALKDDARIEYHHMHLDALLSAIRDG
          ..L.VYP.G.H.L.LY.K.KY.NP..Y..ENG.DE.NN.SLP..EALKD.ARI.YH..HL..L..AI...
Retrocopy EFLFVYPPGIHELMLYAKRKYGNPAIYVMENGIDEGNNSSLPIREALKDPARINYHYKHLLFLNLAIKQK

Parental  ANVKGYFAWSLLDNFEWASGYTVRFGLHFVDYNHGRKRYPKRSAGWFKRFLKR
          .N.KGYF.W...D.FEW..GY..RFGL...D.N...KRYPK.S..W..RFLK.
Retrocopy VNIKGYFSWTFMDCFEWGDGYKDRFGLIYIDRN-TLKRYPKESSKWMGRFLKK

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_38 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
Arabidopsis lyrata	scaffold_403368.1	1 retrocopy	retro_alyr_18,
Triticum aestivum	Traes_2AL_D3D671F67	1 retrocopy	retro_taes_38 ,