RetrogeneDB ID: retro_taes_20

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_4DL_scaff_14257187:103..976(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_4DL_6C8C31181
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2AL_B1862228D
• Aliases: None
• Description: None

Sequence

>retro_taes_20
ATGGCTGCGGGAGCATCGAGCGCTCAGGCGCGCTTCGAGCTTGAGAACGACATTCGGGCGGTGGATGCGGTCTACACGTA
CGACAATCCGCAGCAGCAAAAGTGGCTCTCCGCCAAGCCGTGGACGCGCGACCCGCGCTACTTCAAGAACGTGCGCATCT
CGGCGCTCGCGCTCATAAAGATGGTGATGCACGCGCGCGGGGGCGGCACCATCGAGGTGATGGGGCTGATGCAGGGCAAG
ATCGACCTCGACGACCCGCGCGGCCCGACCCTCATTGTGCTCGACGCGTTTGCGCTGCCGGTGGAGGCGACAGAGACGCG
GGTCAATGCGATGGCGGACGCTTACGAGTACATGGTCGAGTTCCAGTCGCTGGCTCGCGAGGCGGGGCGCGCCGAGAACG
TGATCGGCTGGTACCACTCGCACCCCGGCTACGGCTGCTGGCTCTCGGGCATCGACGTCAACACGCAGATGCTCAACCAG
CAGTTCCAGGAGCCGTGGCTCGCCGTCGTCATCGACCCGACCCGTACCGCTTCGACGGGCAGGGTGGAGATCGGCGCCTT
CCGCACCTACCCGCAGGGCTACAAGCCGCCCGAAGGCGCGCGTGACGAGTTCGAGTCGGTGCCGCTCGCCAAGATTGAGG
ACTTTGGCGCGCACCAGGACCAGTACTACCAGCTCGAGATCTCCTTCTTCAAGTCGGCGTCCGACACGGCGCTGCTCAAC
ACGCTGTGGAACAAGTACTGGGTCGCGACCCTCTCCTCCTCGCCCATCCTCGCCAACGCCGGCTACATGACCGACCAGCT
CAAGGACCTCGCGGACAAGGTGGAGCAGGCGGACGGCCAGATTGCTCACTTTGGGCGCGGCGGCAGCTACCTC

Alignment

ORF - retro_taes_20 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 70.41 %
• Parental protein coverage: 53.85 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GDSIIVMDAFALPVEGTETRVNAQADAYEYMVEYSTINKQAGRLENVVGWYHSHPGYGCWLSGIDVSTQM
          G...IV.DAFALPVE.TETRVNA.ADAYEYMVE.......AGR.ENV.GWYHSHPGYGCWLSGIDV.TQM
Retrocopy GPTLIVLDAFALPVEATETRVNAMADAYEYMVEFQSLAREAGRAENVIGWYHSHPGYGCWLSGIDVNTQM

Parental  LNQQFQEPWLAVVIDPTRTVSAGKVDIGAFRTYPKDYKPPDEPVSEYQTIPLNKIEDFGVHCKQYYSLDI
          LNQQFQEPWLAVVIDPTRT.S.G.V.IGAFRTYP..YKPP.....E....PL.KIEDFG.H..QYY.L.I
Retrocopy LNQQFQEPWLAVVIDPTRTASTGRVEIGAFRTYPQGYKPPEGARDEFESVPLAKIEDFGAHQDQYYQLEI

Parental  TYFKSSLDSHLLDLLWNKYWVNTLSSSPLLGNRDYVAGQIFDLADKLEQAEGQLAH
          ..FKS..D..LL..LWNKYWV.TLSSSP.L.N..Y...Q..DLADK.EQA.GQ.AH
Retrocopy SFFKSASDTALLNTLWNKYWVATLSSSPILANAGYMTDQLKDLADKVEQADGQIAH

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_20 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_2AL_B1862228D	1 retrocopy	retro_taes_20 ,