RetrogeneDB ID: retro_taes_141

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 5B:40471744..40472362(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: None
• Aliases: None
• Status: NOVEL

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_2BL_201961401
• Aliases: None
• Description: None

Sequence

>retro_taes_141
CTCCATATGTTCAACCATTTCAGCAAACTCAAATTTTTGGCAATTGCAGAGACAAGATTTGCAAGTCTCCATATCATGCT
GAAGAGGTTAATGTTAGTCAAGCCATCACTTGAGAAAATGGTTCTTTCCGATGAGTGGAATAATTACAAAGAGGATGATT
TAGAGAAAGCAGCATATGTGAAGCAACTGATTATTGATGAGGTGTGATGGGGTAAAATCAAGTTTATTATTGCCTTCACT
GAGCCCATTTACTCAATGATAAGGGTAGCCGACACAGATAAGTCTACTCTCCATCTGATCTATGAGATGTGCGACACCAT
GATAGAGAAGGTGAAAGTCGCCATCTATCGGGAGGAAAGAAAGGAGCATTGGGAAGAATCACCATTTCATGATGTTGTTC
ATGATATTTTGATAGTTCGCTGGACCAAGAGTTACACCCCTCTCCATTGTATGGCACACTCTGTGAACCCAAAGTACTAC
ACTTCAAGCTGGATTGAGGAAGTCCCTGGTCGTGTAAGCCCTCATAACGATGCTGAAATCACTGAAAACAGGAACAAATT
CTTTAAGAAGTTCTTTACAAATCAAGATGACATGAGGAGAGTAAAGCAACAATTTGCT

Alignment

ORF - retro_taes_141 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 59.22 %
• Parental protein coverage: 99.04 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  LSMFNEFSKLKFLQIAETRFASVVIMLKRLLLIKDALVQMVVHPNWAAYREDDTAKAQRVKELILNDIWW
          L.MFN.FSKLKFL.IAETRFAS..IMLKRL.L.K..L..MV....W..Y.EDD..KA..VK.LI.....W
Retrocopy LHMFNHFSKLKFLAIAETRFASLHIMLKRLMLVKPSLEKMVLSDEWNNYKEDDLEKAAYVKQLIIDEV*W

Parental  DRIGYVVSFTEPIYAMIRLADTDKPCLHLIYEMWDSMIEKVKMPIYRFEGKEEGDECILYDIIKEILVSR
          ..I.....FTEPIY.MIR.ADTDK..LHLIYEM.D.MIEKVK..IYR.E.KE...E....D....IL..R
Retrocopy GKIKFIIAFTEPIYSMIRVADTDKSTLHLIYEMCDTMIEKVKVAIYREERKEHWEESPFHDVVHDILIVR

Parental  WTKSNTPLHCLAHSLNPRYYSPAWINEVPGRISPNDDHEVTEMRNKCFRKFYLDQEDFKTIKKEFA
          WTKS.TPLHC.AHS.NP.YY...WI.EVPGR.SP..D.E.TE.RNK.F.KF...Q.D....K..FA
Retrocopy WTKSYTPLHCMAHSVNPKYYTSSWIEEVPGRVSPHNDAEITENRNKFFKKFFTNQDDMRRVKQQFA

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_141 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 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_2BL_201961401	3 retrocopies	retro_taes_141 , retro_taes_157, retro_taes_225,