RetrogeneDB ID: retro_taes_21

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2B:67165395..67166616(+)
• Located in intron of: None

Retrocopy information

• Ensembl ID: Traes_2BS_CEC883E28
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4AL_060131441
• Aliases: None
• Description: None

Sequence

>retro_taes_21
ATGGAGCGCCGCGACCGCCTACGCGCGCTCATGGCCCGCCTCGAGGCCGAGGGCCAGTTCGACCGCCTCCTCCGCGCGCA
GGAGGACGAACAGGGAGCCCCGGGCGACGACGACGAGGGCACGGAGCAGATCAAGTACCCGTTCTTCACCGAGGGGACCA
ACCAACTGCTCCAGGCGCGCGTTGACATCGCCATGTACTCACTGCCCCGCGCCAAGGCCAGGATCGAGAGGGCCAAGCGA
CGCCTCGCCGACCCCGACGAGGACCCCGAGGCAGAGGCCGCCCTTGCTGTGAAACAGGCGACGGACTTCGCGCTTGAGCG
CAGCGAGATTGGAGATGACCGCCCGCTCACCGGCTGCTCCTTCTCCCGCGATGCCTCAATGCTCGCCACAAGCTCCTGGA
GTGGGATCGTCAAAGTGTGGAGCATGCCACAGATAACCAAAATTGCAACCCTGAAAGGCCATACAGAACGTGCAACCGAT
GTTGCCTTCTCCCCAGTCGATAACTGCTTAGCGACAGCCTCAGCTGATAAAACTGCCAAATTGTGGAACAGCGATGGGTC
ACTTCTGATGTCTTTTGATGGTCACCTGGATCGTCTTGCGCGCCTTGCTTTTCATCCATCTGGAAAGTACCTTGGTACAG
CTAGCTTTGACAAGACCTGGAGATTGTGGGACATCAACACTGGAACTGAACTTCTACTCCAGGAGGGACATAGCAGAAGT
GTATATGGTGTCAGCTTTCACCCAGACGGTTCTTTAGCTGCATCTTGTGGGTTTGATGCTAGTGCTCGAGTTTGGGATTT
AAGGTCAGGAAGATTGTACTGTACCCTCATTGGACATGTCAAACCTGTCCTAGGAGTCAGCTTCTCACCTAATGGTCATC
TGGTTGCAACCGCAAGTGAAGACAATTTCTGTCGAATATGGGATTTGAGGACCAGACAAATGCTATATTCTATACCAGCA
CATAAGAGTCTCATCTCGCATGTGAAATTTGAACCACAGGAGGGTTATTATTTAGCGACATCTTCCTATGACACTAAAGC
AGCGCTATGGTCAACTCGGGATTACAAACCAATTAAAAGCTTGTCAGGCCATGAGTCAAACGTTACTAGTCTGGATATTA
GTGGAGATGGACAACAGATTGCGACTGTTTCACTTGATAGAACGATAAAGATCTGGTCATGCAGAGGCAGCGCGCGGGAT
GATGAGATGGAGTTGGATTAA

Alignment

ORF - retro_taes_21 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 93.87 %
• Parental protein coverage: 86.57 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MERRDRLRALMVRLEADGQFDRLLRAQEDEQGAPGDDDD-MEQIQYPFFTEGTNQLLQARVDIAMYSLPR
          MERRDRLRALM.RLEA.GQFDRLLRAQEDEQGAPGDDD...EQI.YPFFTEGTNQLLQARVDIAMYSLPR
Retrocopy MERRDRLRALMARLEAEGQFDRLLRAQEDEQGAPGDDDEGTEQIKYPFFTEGTNQLLQARVDIAMYSLPR

Parental  AKARVDSAKRRLAGPDEDPEAEAALVVKQAGDFVLECSEIGDDRPLTGCSFSRDASMLATSSWSGIIKVW
          AKAR...AKRRLA.PDEDPEAEAAL.VKQA.DF.LE.SEIGDDRPLTGCSFSRDASMLATSSWSGI.KVW
Retrocopy AKARIERAKRRLADPDEDPEAEAALAVKQATDFALERSEIGDDRPLTGCSFSRDASMLATSSWSGIVKVW

Parental  SMPQITKIATLKGHTERATDVAFSPVDNCLATASADKTAKLWNRDGSLLMSFDGHLDRLARVAFHPSGKY
          SMPQITKIATLKGHTERATDVAFSPVDNCLATASADKTAKLWN.DGSLLMSFDGHLDRLAR.AFHPSGKY
Retrocopy SMPQITKIATLKGHTERATDVAFSPVDNCLATASADKTAKLWNSDGSLLMSFDGHLDRLARLAFHPSGKY

Parental  LGTASFDKTWRLWDINTGTELLLQEGHSRSVYGVSFHPDGSLAASCGLDANARVWDLRSGRLYCTLIGHV
          LGTASFDKTWRLWDINTGTELLLQEGHSRSVYGVSFHPDGSLAASCG.DA.ARVWDLRSGRLYCTLIGHV
Retrocopy LGTASFDKTWRLWDINTGTELLLQEGHSRSVYGVSFHPDGSLAASCGFDASARVWDLRSGRLYCTLIGHV

Parental  KPVLGVSFSPNGHLVATASEDNFCRIWDLRTRQMVYSIPAHKSLISHVKFEPQEGYYLATSSYDSKAALW
          KPVLGVSFSPNGHLVATASEDNFCRIWDLRTRQM.YSIPAHKSLISHVKFEPQEGYYLATSSYD.KAALW
Retrocopy KPVLGVSFSPNGHLVATASEDNFCRIWDLRTRQMLYSIPAHKSLISHVKFEPQEGYYLATSSYDTKAALW

Parental  STRDYKPIKSLAGHESKVTSLDISG
          STRDYKPIKSL.GHES.VTSLDISG
Retrocopy STRDYKPIKSLSGHESNVTSLDISG

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_21 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_19450	1 retrocopy	retro_atau_1,
Hordeum vulgare	MLOC_50327	1 retrocopy	retro_hvul_8,
Triticum aestivum	Traes_4AL_060131441	1 retrocopy	retro_taes_21 ,