RetrogeneDB ID: retro_taes_15

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2DS_scaff_5303277:2..767(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_2DS_999FE01631
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_5AL_2A92E7079
• Aliases: None
• Description: None

Sequence

>retro_taes_15
ATGGCGGACCTGCGGGCGGCCACCAAGAACTTCGGCTCCGCGTCCTACCTCGGGGAGGGCGGGTTCGGGTGCGTGTACAA
GGGGTGGATCGACGAGACCACGCTCGCCCCCGCCAGGCCCGGCGCCACCAACGCCATGATGGTGGCCATCAAGAAGCTCA
AGAAGGAGAGCTTCCAGGGCCACAGGGAGTGGCTCACCGAGGTCACCTACCTCGGCGACCTCCACCACGACAACCTCGTC
AAGCTCGTCGGCTACTGCTCCGACTCCGACAGCAACAAGCTGCTGGTCTACGAGTACATGCCCCGCGGCAGCCTCGAGAA
CCACCTGTTCCGGCGGGGCAGCCAGCCGCCGCTGCCGTGGTCCACGCGCTTGTCCGTCGCCGTCGACGTCGCCCGCGGCC
TCGCCTTCCTCCACTCCCGCGACGTCATCTTCCGGGACCTCAAGTCCTCCAACGTGCTCCTCGGCCCCGACCACCGCGCC
AAGCTCTCCGACTTCGGCCTCGCCCGGGCCGGCCCCACCGGCGGCAAGACCCACGTCTCCACCCGCGTCGTCGGCACGCG
CGGGTACGCCGCGCCGGAGTACGTCGCCACGGGCCACCTCTCGGCCAAGAGCGACGTCTACGGCTTCGGGGTGGTGCTCC
TGGAGCTCATGACCGGGCGGCGCGCGCTCGACGAGGCCCGCGGGGTGGCGTCGGAGCTGCTGGTGGACTGGGCGATGCCG
ATGCTGCAGGGGGAGCGGCGCAAGGTGATACGGGTCATGGACACC

Alignment

ORF - retro_taes_15 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 62.11 %
• Parental protein coverage: 75.9 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  DLRLATRNFRPDSVLGEGGFGSVYKGWIDEHTLSACKPG--TGIPVAVKRLNLEGLQGHREWLAEVNYLG
          DLR.AT.NF...S.LGEGGFG.VYKGWIDE.TL....PG......VA.K.L..E..QGHREWL.EV.YLG
Retrocopy DLRAATKNFGSASYLGEGGFGCVYKGWIDETTLAPARPGATNAMMVAIKKLKKESFQGHREWLTEVTYLG

Parental  QFCHTNLVKLIGYCLE-DEHRLLVYECMPRGSLENHLFRRGSHFQPLSWNLRMKVALGAAKGLAYLHSAE
          ...H.NLVKL.GYC...D...LLVYE.MPRGSLENHLFRRGS...PL.W..R..VA...A.GLA.LHS..
Retrocopy DLHHDNLVKLVGYCSDSDSNKLLVYEYMPRGSLENHLFRRGSQ-PPLPWSTRLSVAVDVARGLAFLHSRD

Parental  AKVIYRDFKTSNILLDTDYTAKLSDFGLAKDGPVGEKSHVSTRVMGTHGYAAPEYLSTGHLTAKSDIYSF
          ..VI.RD.K.SN.LL..D..AKLSDFGLA..GP.G.K.HVSTRV.GT.GYAAPEY..TGHL.AKSD.Y.F
Retrocopy --VIFRDLKSSNVLLGPDHRAKLSDFGLARAGPTGGKTHVSTRVVGTRGYAAPEYVATGHLSAKSDVYGF

Parental  GVVLLEMLSGRRAIDKNRPQGEHNLVEWARPYLT-HKRKIFRVLDT
          GVVLLE...GRRA.D..R......LV.WA.P.L....RK..RV.DT
Retrocopy GVVLLELMTGRRALDEARGVASELLVDWAMPMLQGERRKVIRVMDT

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_15 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_5AL_2A92E7079	1 retrocopy	retro_taes_15 ,