RetrogeneDB ID: retro_taes_173

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_7897725:157..579(+)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_3AL_61AEDEA78
• Aliases: None
• Description: None

Sequence

>retro_taes_173
ATAAATTCAAAATTCACTGACCTGGAGATCTCTCAATTAATTTGCAGCTATGGAGCTACTCGAGGCAGCAGAACATTATG
CCACACGGAGATGGGGATGGCCATGCCCGCGCTGATGCCGTCGGCCGTCGGTGAGAGCATCACCGTCAACAACGGCTCCA
GCGACCTCTCCAGGAGCTTCTCCATGAGCTCCTCGGGCGACACCAACTCCAACATCATGTTCTTCACGCCCGGAAGCAAA
AAAGCGAAGGTGCTCATCGACAGCGACGACGGCATGGTCACCAGCCTCAGCAAAATCGAATCCCAAGTAGGACAAGCTTC
ACATGTATACACTTCACATCCATCCGCACTCTGCTGCCCGTCAATTGTTTAATGCTACAGTTCTAACCTTGGACCAAATT
CAGTTTGGCATGTCAACCACGT

Alignment

ORF - retro_taes_173 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.2 %
• Parental protein coverage: 91.56 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 1

Retrocopy - Parental Gene Alignment:

Parental  ISPNSTKSGTTHVLSCYGATRGSRTLSHTEMGMAMPVLMPSAVGESIIVNNGSSDLSRSFSMSSSGDTNS
          I....T..........YGATRGSRTL.HTEMGMAMP.LMPSAVGESI.VNNGSSDLSRSFSMSSSGDTNS
Retrocopy INSKFTDLEISQLICSYGATRGSRTLCHTEMGMAMPALMPSAVGESITVNNGSSDLSRSFSMSSSGDTNS

Parental  NIMFFTPGSKKAKVLIDSDDGMVTSLSKIESQFGM-STTSLDMSGMDDYLQLQQYFIAYTVCTKRGCATH
          NIMFFTPGSKKAKVLIDSDDGMVTSLSKIESQ.G..S.T..........L............TK...A..
Retrocopy NIMFFTPGSKKAKVLIDSDDGMVTSLSKIESQVGQ<SFTCIHFTSIRTLLPVNCLMLQF*PWTKFSLACQ

Parental  PR
          PR
Retrocopy PR

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_173 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_3AL_61AEDEA78	2 retrocopies	retro_taes_111, retro_taes_173 ,