RetrogeneDB ID: retro_taes_24

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3B:43776790..43778404(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: TRAES3BF088600010CFD_g
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5BL_4FE938B74
• Aliases: None
• Description: None

Sequence

>retro_taes_24
ATGGCAGACGACGGCGTCGATCCCACCCAGTACTACCAGAACAGGCTCAGCGCCCTCGCCACGCAGAAGGCCGCCGGCGT
GAACCCCTACCCGCACGCCTTCCAGCCCACCGTCTCCGTCGCCGACTACGTCCACAGGTACAGGGGCCTGGCAGACGGGG
AGAAGCTGGTGGACATCACGGAGTCCCTGGCCGGGAGGGTCATGAGCAAGAGGACGTCGTCCTCCAGCCTCTTCTTCTAT
GACCTCCATGGTGGGGGCGCCAAGGTCCAGGTCATGGCCGACGCCGGGACATCAGAGCTGGAGACACCCGAGGAGTTCTC
CGCTTTCCACTCCGGCGTGAAGGTCGGCGACGTCGTTGGCGTGTTTGGGTTCCCCGGGAAGAGCAATAGGGGCGAGCTCA
GCATATTTCCTGCCCGGTTCGTTGTGCTCTCGCCCTGCCTGCACATGCTGCCGCGGCAGCCAGATAGGCACCGTCGCGCG
CCGCCGCTACCGTGGGCTCCCGGCATGCCCAGGAACATGGAGAGCTACGCCCTAAAGGACCAGAAGACACGGTACCGTCG
GCGGTACTTTGATCTCATGGTGAACCCCGAGGTGAGGTCCGTCTTCACGACGCGAGCCAGAGTCGTCTCCTTCATCCGCA
GCTTCCTCGACGAGCGCGGGTTTCTGGAGGTGGACACCCCGATGATGAACGTGGTGGCCGGTGGCGCCGCCGCGAGGCCG
TTCGTCACGAACCACAACGACCTCAACATGAAGCTGTACATGCGCATCGCGCCGGAGCTCTACCTGAAGCAGCTCGTCGT
CGGGGGGCTGGACTGCGTGTACGAGATCGGGAGGCAGTTCAGGAACGAAGGCATCGACACGACGCACAACCCGGAGTTCA
CGACGTGCGAGTTCTACATGGCATATACGGATTACAACAACCTCATGGAGCTCACGGAGGAGATGCTGGGCGGCATGGTG
AAGGAGCTCACGGGCGGCTACAAGGTACAGTACCACGCCAACGGGACCGACAAGCCGCCTATCGAGATCGATTTCACGCC
TCCGTTCGCGCGAATCGACATGATCAAGGGACTGGAGGACATGGCCGATCTCAACATACCGGAGGAGGATCTGTCGACTG
ACGATGCCAACGAGTACCTGATGGAGGCCTGTGCCAGGTACGACATTACGTGCCCGCTTCCACACACGACGGCATGGCTG
CTGGACAAGCTTGTCGGGCACTTCTTGGAGGAGACATGCGTGAACCCGACGTTCATCATCAACCATCCGGAGATCATGAG
CCCGCTGGCCAAGTCCCACAGGGACGAGGCCCGGCCTGGACTGACCGAAAGGTTTGAGCTGTTCATCAACAAGCATGAGG
TGTGCAATGCCTACACGGAGCTGAACGACCCCGTCGTGCAGAGGCAGCGGTTTGAGGAGCAGCTGAGGAATCGTCAGGAC
GGTGACGATGAAGCAATGTCCATGGACGAAACGTTCTGCACTGCCCTTGAGTATGGCCTGCCGCCGACCGGAGGCTGGGG
TCTGGGGATTGATCGCCTCACCATGTTGTTGACGGATTCCCAAAACATAAAGGAGGTCCTCCTGTTCCCGGCCATGAAGC
CTCAAGACAGCTAG

Alignment

ORF - retro_taes_24 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 76.22 %
• Parental protein coverage: 86.44 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DEDMDPTQYYENRLRTLDALKAGGANPYPHKFLASISVPGYIEKYKGLNEGEKLADVTECLAGRIMNKRT
          D...DPTQYY.NRL..L...KA.G.NPYPH.F....SV..Y...Y.GL..GEKL.D.TE.LAGR.M.KRT
Retrocopy DDGVDPTQYYQNRLSALATQKAAGVNPYPHAFQPTVSVADYVHRYRGLADGEKLVDITESLAGRVMSKRT

Parental  SSSKLLFYDLYGDGVKVQVMADARTSELEDTE-FSSFHSGVKRGDIVGICGIPGKSNRGELSVFPRKFVV
          SSS.L.FYDL.G.G.KVQVMADA.TSELE..E.FS.FHSGVK.GD.VG..G.PGKSNRGELS.FP..FVV
Retrocopy SSSSLFFYDLHGGGAKVQVMADAGTSELETPEEFSAFHSGVKVGDVVGVFGFPGKSNRGELSIFPARFVV

Parental  LSPCLHMMPRQKSEGS-AVPTQWAPGMCRNIEKYVLRDQETRYRQRYLDLMVNHEVRHIFKTRSKIVSFI
          LSPCLHM.PRQ......A.P..WAPGM.RN.E.Y.L.DQ.TRYR.RY.DLMVN.EVR..F.TR...VSFI
Retrocopy LSPCLHMLPRQPDRHRRAPPLPWAPGMPRNMESYALKDQKTRYRRRYFDLMVNPEVRSVFTTRARVVSFI

Parental  RRFLDGLDFLEVETPMMNMIAGGAAARPFVTHHNDLNMKLYMRIAPELYLKELVVGGLDRVYEIGKQFRN
          R.FLD...FLEV.TPMMN..AGGAAARPFVT.HNDLNMKLYMRIAPELYLK.LVVGGLD.VYEIG.QFRN
Retrocopy RSFLDERGFLEVDTPMMNVVAGGAAARPFVTNHNDLNMKLYMRIAPELYLKQLVVGGLDCVYEIGRQFRN

Parental  EGIDLTHNPEFTTVEFYMAYADYNDLMELTEAMISGMVKELTGGYKIKYHANGVDNPPIEIDFTPPFRRI
          EGID.THNPEFTT.EFYMAY.DYN.LMELTE.M..GMVKELTGGYK..YHANG.D.PPIEIDFTPPF.RI
Retrocopy EGIDTTHNPEFTTCEFYMAYTDYNNLMELTEEMLGGMVKELTGGYKVQYHANGTDKPPIEIDFTPPFARI

Parental  DMIEGLEAMAKLEIP-KDISSDETNKYLIDACAKYDVKCPPPQTTTRLLDKLVGHFLEETCVNPTFIINH
          DMI.GLE.MA.L.IP..D.S.D..N.YL..ACA.YD..CP.P.TT..LLDKLVGHFLEETCVNPTFIINH
Retrocopy DMIKGLEDMADLNIPEEDLSTDDANEYLMEACARYDITCPLPHTTAWLLDKLVGHFLEETCVNPTFIINH

Parental  PEIMSPLAKWHR--SRPGLTERFELFVNKHEVCNAYTELNDPVVQRQRFEEQLKDRQSGDDEAMALDETF
          PEIMSPLAK.HR...RPGLTERFELF.NKHEVCNAYTELNDPVVQRQRFEEQL..RQ.GDDEAM..DETF
Retrocopy PEIMSPLAKSHRDEARPGLTERFELFINKHEVCNAYTELNDPVVQRQRFEEQLRNRQDGDDEAMSMDETF

Parental  CTALEYGLPPTGGWGLGIDRLTMMLTDSQNIKEVLLFPAMKPQE
          CTALEYGLPPTGGWGLGIDRLTM.LTDSQNIKEVLLFPAMKPQ.
Retrocopy CTALEYGLPPTGGWGLGIDRLTMLLTDSQNIKEVLLFPAMKPQD

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_24 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_4FE938B74	1 retrocopy	retro_taes_24 ,