RetrogeneDB ID: retro_taes_112

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 2D:20481269..20482013(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_6BL_302923E6D
• Aliases: None
• Description: None

Sequence

>retro_taes_112
CACCTGTCTCTACTGAAAGTGGAACACCCGCGACTCTGCGAGCTGGTGATTTCCTGAAGCAGTCTTAAGAGGGTTGATCT
GACGTGGGTGCCAAGGCTCACACTAGTGAAATTTAATGTTTTTTCATCTCAACATGATCCCTTCTGTTTCGGCCATGTCC
CCCTGCTCCTGACCGTTAGAATCATCAATGCCGGCCGTTCGTGGCACAGGATGCTCAAGTTAAGCGAGCTGCTTGGTGAA
ACTGCCATAAGCAACATGCATTTGAACTTCAAAAGTGAGAAAATTTGGGTCAAGCCGGAGGGTCGAAAACAACTGTTACC
GGTGTTCCGCAGACTAAGGCTTGTGTATCTGCTTAACATTTCCGAAGAATGTGATCTGGCTTGGACGATGTTCATACTCG
AAGGTGCACCCGCCCTTAAGGAACTATGCGTCATGGTGCGGGATCATTCATATGAAGCGGTGACGGCGGAGCGGAGGAAG
GTGTATAGGTTTAGCGAGGAGAAGGGCAAGGGACTGGAGTGGGAACCATCTGCATCTGATTTCAAGCACCATGATATGGC
CGTGCTCAAAATCTATGGGTTTAAGGCACAAGGCAAATTCGTGAGCTATGACAGACGATTCAGGAAAGCGGCGGTGAATC
CGGAGGACATACACCTGTATGAGAATCCAGCGTGTGACAAGTGCAAGCACGTGGTTCCAAAGGCGTGGACATGGAAGCAG
AGGATCTCGCTTAGGCCGCGCTTG

Alignment

ORF - retro_taes_112 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 65.32 %
• Parental protein coverage: 53.45 %
• Number of stop codons detected: 1
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  NMSLLEVEHEQLRELLIFCSSIKRVDLKCVPKLTILKFNAFMSPEDPFCLGYVPLLQTVTIINTGLSRHK
          ..SLL.VEH..L.EL.I..SS.KRVDL..VP.LT..KFN.F.S..DPFC.G.VPLL.TV.IIN.G.S.H.
Retrocopy HLSLLKVEHPRLCELVIS*SSLKRVDLTWVPRLTLVKFNVFSSQHDPFCFGHVPLLLTVRIINAGRSWHR

Parental  MLKLSELLGKTAISFLHLNFKCEKIWVKPEGRKQLLPVFHKLRLVNLINISEECDLTWTMFILQGAPALK
          MLKLSELLG.TAIS..HLNFK.EKIWVKPEGRKQLLPVF..LRLV.L.NISEECDL.WTMFIL.GAPALK
Retrocopy MLKLSELLGETAISNMHLNFKSEKIWVKPEGRKQLLPVFRRLRLVYLLNISEECDLAWTMFILEGAPALK

Parental  ELCIMVRDHLCEMTTGEVRKRFTYSEKKDKGLEWEPSSPDFKHHNLAEVRIYGFQAEDKFMRYARNVVEA
          ELC.MVRDH..E..T.E.RK....SE.K.KGLEWEPS..DFKHH..A...IYGF.A..KF..Y.R....A
Retrocopy ELCVMVRDHSYEAVTAERRKVYRFSEEKGKGLEWEPSASDFKHHDMAVLKIYGFKAQGKFVSYDRRFRKA

Parental  AVNLEAMNLYRNPGCDKCKHTLPGQWTWTEMLLIRDKI
          AVN.E...LY.NP.CDKCKH..P..WTW......R...
Retrocopy AVNPEDIHLYENPACDKCKHVVPKAWTWKQRISLRPRL

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_112 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 1 retrocopy.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_6BL_302923E6D	1 retrocopy	retro_taes_112 ,