RetrogeneDB ID: retro_taes_119

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3A:2248420..2248948(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4AS_90C3255FC
• Aliases: None
• Description: None

Sequence

>retro_taes_119
TCGATCGACGGCAACGGCGCCGTCGCCGAGAGCCTGAGGAACAACCTCAAGGTGCGCTTCGACGGGAAGCGCTACTCGTA
CAAGCGCACGCACCACGTCAAGGGCAAAGACGAGCTGCTCTCACTGATCATAAGCTTCCCTGAGGGCCTCCCGGTGTCGG
AGGTGCAAGACGCCTACCCAACCATGCTGGAGGATCTGCAGGCCCTGAAATCTTCCGGTGACATCTTTTTGTTGTCGGTT
GAGAGAGACATGATTGCGTACCCCAACGACCCGAGGTCGAGGATGGAGGTGGACGCCGAGCTCAAGAAGATGTTCCACGA
CATCAAACTGCCGGTAGACATGCTGGACATCGAGAAGGAGCTCCGCAAGAACGGCGAGAAGCCGGCCACCGACACAGCCA
AGAGACGCGCCGCTGAGCAGATCCACGGCCGGCAACCAGAGCCGGAGAAGGCCAGGAAGAAGCCGCGCGGGATCACCAGC
AGGACCAAGCTCACTAACGCTCATCTCCCGGGACTCTTCGACTTGCCT

Alignment

ORF - retro_taes_119 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.17 %
• Parental protein coverage: 62.54 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  AINSNKAVFDSLTNNPKVQFDGKRFSYKSKHDLKGKDQLLHLIRRFPEGLPVVEVKDSYPTVLDDLQALK
          .I..N.AV..SL.NN.KV.FDGKR.SYK..H..KGKD.LL.LI..FPEGLPV.EV.D.YPT.L.DLQALK
Retrocopy SIDGNGAVAESLRNNLKVRFDGKRYSYKRTHHVKGKDELLSLIISFPEGLPVSEVQDAYPTMLEDLQALK

Parental  ASGDVWWLSSMDSQEDIVYPNDPKSKIKVDADLKQLYREIELPRDMIDIEKELLKNGHKPATDTTKRRAA
          .SGD...LS.......I.YPNDP.S...VDA.LK.....I.LP.DM.DIEKEL.KNG.KPATDT.KRRAA
Retrocopy SSGDIFLLSV--ERDMIAYPNDPRSRMEVDAELKKMFHDIKLPVDMLDIEKELRKNGEKPATDTAKRRAA

Parental  AQIHGQRPKP-KAKKKQKEITKRTKLTNAHLPELFDLP
          .QIHG..P.P.KA.KK...IT.RTKLTNAHLP.LFDLP
Retrocopy EQIHGRQPEPEKARKKPRGITSRTKLTNAHLPGLFDLP

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_119 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 3 parental genes, and 3 retrocopies.

Species	Parental gene accession	Retrocopies number
Aegilops tauschii	F775_06457	1 retrocopy	retro_atau_12,
Hordeum vulgare	MLOC_10618	1 retrocopy	retro_hvul_52,
Triticum aestivum	Traes_4AS_90C3255FC	1 retrocopy	retro_taes_119 ,