RetrogeneDB ID: retro_taes_146

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 5D:75230467..75230943(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_1BS_FE41536F4
• Aliases: None
• Description: None

Sequence

>retro_taes_146
GCCGCCCTGCCTCCGAGTTGACCTGCCGCCGCGTCTTCGCCACTGCTCCGGCCTCGTGCACGTCCTAAGCCACCGGTCCC
TGTCGTGACTCCCTTCACCGCAGCCTCTGCCTGAGCCGCTGCATCCGCGGCTTGCCTCGCGCCCTTGCGTCAAGTCGCCC
CGGGCCGCCTGTCGGGTCACTACGCCCGTGCCGACTCTGCGTCGCCCTGCTCCTCTTGCGTGCCCTGTGACCCGCCGCCC
TGGCCCTGCCTGGTACTCTTTCTACCTAAAAAACGAGCCAATGCCTAATGCCATGTTAGAAAAGGAATAGAGTAATGAAG
TACTTCAAGCAGAAGATTACTGAAACAGTTGAGTACTGCTCGAAAAATATCGCATTGCTACCGACGTCTGTTGCCCTTGC
CAATCGAACTAAGGTGTATCTCAAACCAAGAAGATTTGGAGAGGCAGAAAAGGATTGCATGAAAGCTCTGAATCTG

Alignment

ORF - retro_taes_146 Open Reading Frame is not conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 50.62 %
• Parental protein coverage: 92.81 %
• Number of stop codons detected: 3
• Number of frameshifts detected: 2

Retrocopy - Parental Gene Alignment:

Parental  AALPPP-TASAASPRLRC-ASETPSRPLLR-WTAAPLRQAGTPPLSARLRCTAKG-ACWSSSPTRPTL--
          AALPP...A.A.SP.LR..A...P..P.....TAA....A......A.LR..A.G.AC....P..PTL..
Retrocopy AALPPS*PAAASSPLLRPRARPKPPVPVVTPFTAASA*AAASAACLAPLRQVAPG>ACRVTTPV-PTLRR

Parental  VAPLLQEMAGRYNRTNYSSYLNDEPMPDATSEKEQGNE-YFKQKKFAEAVECYSRSIALLPTAVAFANRA
          .APL......R.....YS.YL..EPMP.A..EKE..NE.YFKQK...E.VE..S..IALLPT.VA.ANR.
Retrocopy PAPLACPVTRRPGPAWYSFYLKNEPMPNAMLEKE*SNE>YFKQK-ITETVEYCSKNIALLPTSVALANRT

Parental  MAYLKLRRFEEAENDCTEALNL
          ..YLK.RRF.EAE.DC..ALNL
Retrocopy KVYLKPRRFGEAEKDCMKALNL

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_146 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_1BS_FE41536F4	1 retrocopy	retro_taes_146 ,