RetrogeneDB ID: retro_taes_226

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_7DS_scaff_3809525:85..967(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: TRAES3BF010600070CFD_g
• Aliases: None
• Description: None

Sequence

>retro_taes_226
GTCAAGTTGGGTAATTGTGGAATCATCTTGGTGCTTTTCGAGACGCTATCTGGGTTTGCACTTTTCTCATACGATGGCCT
CAAACTCTTCCGACCCAAAGCAATGGAGGACATCTGGGCGGACTTCGTCAAGGGTTACCTGGCAGAATCAGTTGTTTGGC
TGAAAGAATTTAAATGCTTTGAGAACACGAGCAGCGCCATTCACCCCGTTACTGGCGTCGACAACGATCTCGCTACGATG
ATCCGGAAGTACATCGTTCCCGGGCAGTAGACACTAGCTGTTGGAAAGCCTCAGTACAAACGCATCATTCAAGACAAGCT
GGGAATATCCTGCCTGTACGATGACACTGTTATGGAGCTCATGTGGGGCCTGAAGAACTGCTTCGAGTACCTAGTGCCTT
CGGAGAAGTTGGAGCTGAGTAAGGATGATCACCTCCGTATGAGCAAAGGGATGGAAGCTGTCCTGGGTCGTTACAACTTG
AAAGTCGAACCGGAGATGGTTAATGAACAAATCATTGAGACGACGGCTGTTGTGTATAACTATGATCATTTTGTGAACAA
CCACGCCGAGTCCTTGCGGCCTGCCGGTGAGCTCCTGAAAAAGATTTCAAACATTGACCCTCAGAATTGGGGCCTAGTTA
AAGTAGCGATTGCTCTAAAGATACCATGTTACCCTGAAGAGGAACTTCCCGGCAATCCTCTCGAGGTTTTCTCGGCGGAG
GAGTATTCCAAGTTGGTGAATGATAGACCTCGATACGAAGGTAAATTTTTTAAGGTGTCTTGCAAGATTATCTTCCAAGA
AATGATATCGGTCCGTCGCCATAGGAATAGGATGTTAGGACTCTTGGCCTATCACGTGGTGGAGGCAAGAAAAGGATATG
AT

Alignment

ORF - retro_taes_226 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 69.73 %
• Parental protein coverage: 77.11 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  IELGNCGLILVLFETQSGFAIFTYDGMNLLLDNAVENIWVDFIEGYLAKSMVWLKEFKRLENVSSAIDPV
          ..LGNCG.ILVLFET.SGFA.F.YDG..L....A.E.IW.DF..GYLA.S.VWLKEFK..EN.SSAI.PV
Retrocopy VKLGNCGIILVLFETLSGFALFSYDGLKLFRPKAMEDIWADFVKGYLAESVVWLKEFKCFENTSSAIHPV

Parental  TGVDEDLAMTIRKYIVPGQ-QLAVGKPEYKTIIEDKLEISCLHDDAVMELMWGLGNCVEYLVPSEKLELT
          TGVD.DLA..IRKYIVPGQ..LAVGKP.YK.II.DKL.ISCL.DD.VMELMWGL.NC.EYLVPSEKLEL.
Retrocopy TGVDNDLATMIRKYIVPGQ*TLAVGKPQYKRIIQDKLGISCLYDDTVMELMWGLKNCFEYLVPSEKLELS

Parental  MEGRLRMSKGLKTVLESYDLQVEPEMVNKHIIETAGVVYSCDHSVNKHGKSLRAAGEHLKKISDIDSQDW
          ....LRMSKG...VL..Y.L.VEPEMVN..IIET..VVY..DH.VN.H..SLR.AGE.LKKIS.ID.Q.W
Retrocopy KDDHLRMSKGMEAVLGRYNLKVEPEMVNEQIIETTAVVYNYDHFVNNHAESLRPAGELLKKISNIDPQNW

Parental  CLIKLVTALKLLCYPTEELPGIPLEVFSAEEYSKLVNDGPKYEGKLLKVSCKTVFKEMVWARRLRNRMLR
          .L.K...ALK..CYP.EELPG.PLEVFSAEEYSKLVND.P.YEGK..KVSCK..F.EM...RR.RNRML.
Retrocopy GLVKVAIALKIPCYPEEELPGNPLEVFSAEEYSKLVNDRPRYEGKFFKVSCKIIFQEMISVRRHRNRMLG

Parental  LLAHYVREARKAYE
          LLA..V.EARK.Y.
Retrocopy LLAYHVVEARKGYD

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_226 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
Aegilops tauschii	F775_01983	1 retrocopy	retro_atau_72,
Triticum aestivum	TRAES3BF010600070CFD_g	1 retrocopy	retro_taes_226 ,