RetrogeneDB ID: retro_taes_181

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8084422:1698..2427(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6DL_237C26703
• Aliases: None
• Description: None

Sequence

>retro_taes_181
GTGGGCGACCGTGTTTGCGCACTGGTGGCCGGTGGCGGTTACGCCGAGCTGTGTGTGGCGCCGATTGGCCAATGCCTGCC
GGTGCCGGAAGGCTTCAGCGATATCGAGGCCGCCTCCCTGCCGGAAACTTTTTTCACGGTATGGAGCAATGTGTTCGACC
GCGCGCGCCTGCAAAAGGGTGAAACGCTGCTGATCCAGGGCGGCTCCAGCGGCATCGGCGTGACGGCAATCCAGATCGCC
AAAGCCATAGGCGCGACCGTGATCGTGACGGCTGGCAGCGACGACAAATGCGCGGCCTGCCTGAAGCTCGGTGCTGACCA
CGCCATCAATTACAAAACCGCGGACTTCGCTGAAGAGGTCAAGACGCTGACCGCCGGCAAGGGCGTGAACGTGATTCTGG
ACATGGTCGCCGGCAGTTATGTGGCGCGCGAGATCGGCTGCCTGGCCGAGGACGGCCGCCTGGTCTTCATCGCTGTGCAG
GGCGGCACCAAGGCGGAGTTCAATGCCGGCCTGATGCTGCGCAAGCGCCTGACCATCACTGGCTCCACCCTGCGCCCGCG
TTCTGTCGAATTCAAGACGGCGATTGCCCAGGCGCTGAAGGACAAAGTCTGGCCACTGTTGGCCCAAGGCGCCATCAAGC
CGGTGATTCACAGCACCTTTGCCGCAGCCGATGCAGCTCAGGCGCATGTGCTGATGGAGTCGAACCAGCACATCGGCAAA
ATTGTGTTG

Alignment

ORF - retro_taes_181 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 55.14 %
• Parental protein coverage: 74.31 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  VGDQVCALLNGGGYAEKVVVPAALLLPVPEGVSLTDAAGLPEVACTVWSTVFMTSHLSPGESFLIHGGSS
          VGD.VCAL..GGGYAE..V.P....LPVPEG.S...AA.LPE...TVWS.VF....L..GE..LI.GGSS
Retrocopy VGDRVCALVAGGGYAELCVAPIGQCLPVPEGFSDIEAASLPETFFTVWSNVFDRARLQKGETLLIQGGSS

Parental  GIGTFAIQIAKHLGIKVFVTAGSEEKLAACAGLGADVCINYKTEEFVARIKEETNGKGVDVILDNVGGPY
          GIG..AIQIAK..G..V.VTAGS..K.AAC..LGAD..INYKT..F....K..T.GKGV.VILD.V.G.Y
Retrocopy GIGVTAIQIAKAIGATVIVTAGSDDKCAACLKLGADHAINYKTADFAEEVKTLTAGKGVNVILDMVAGSY

Parental  LQRNLDSLAVDGRLFIIGFMGGTVTEVNLQAMLARRLTIQVAGLRSRSLANKAQIVSEVEKNVWPAVASG
          ..R....LA.DGRL..I...GGT..E.N...ML..RLTI....LR.RS...K..I.......VWP..A.G
Retrocopy VAREIGCLAEDGRLVFIAVQGGTKAEFNAGLMLRKRLTITGSTLRPRSVEFKTAIAQALKDKVWPLLAQG

Parental  KVKPVIYKTLPLSEAAEAHKLMESSSHIGKILL
          ..KPVI..T.....AA.AH.LMES..HIGKI.L
Retrocopy AIKPVIHSTFAAADAAQAHVLMESNQHIGKIVL

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_181 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
Oryza sativa indica	BGIOSGA009239	1 retrocopy	retro_oind_35,
Triticum aestivum	Traes_6DL_237C26703	1 retrocopy	retro_taes_181 ,