RetrogeneDB ID: retro_taes_180

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8022176:5319..6492(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4AL_766B299B11
• Aliases: None
• Description: None

Sequence

>retro_taes_180
TTTGAGCGGACCAAGCCGCACGTCAACGTAGGCACGATTGGGCACGTTGACCATGGCAAGACCACACTGACGGCAGCGAT
CACGACAGTGCTCGCAGCCAAATTCGGCGGCGAAGCCAAAGGCTACGACCAAATTGATGCGGCCCCGGAAGAAAAAGCCC
GCGGCATCACCATCAACACCGCCCACGTCGAGTACGAGACGGCGAATCGCCACTACGCCCACGTAGACTGCCCAGGCCAC
GCCGACTATGTGAAAAACATGATCACCGGCGCCGCCCAGATGGACGGCGCGATTTTGGTGTGCTCCGCCGCTGACGGCCC
CATGCCCCAGACCCGTGAGCACATTTTGCTGGCCCGCCAGGTGGGCGTTCCTTACATCATCGTGTTCCTGAACAAATGCG
ACATGGTTGACGATGCCGAGCTGCTCGAACTCGTTGAAATGGAAGTTCGCGAGCTCCTGGACAAGTACGACTTCCCCGGC
GACGCCACCCCCATCATCCACGGCTCAGCCAAGCTCGCCATGGAGGGCGACAAAGGCCCCCTGGGTGAAGAAGCCATCAT
GAAGCTGGCCGACGCCCTGGACACCTACATCCCCATGCCCCAGCGCGCTGTGGATGGCGCCTTCCTGATGCCTGTGGAAG
ACGTTTTCTCCATCTCCGGCCGCGGCACCGTCGTGACCGGCCGTGTCGAGCGCGGTATTGTCAAGGTCGGCGAAGAAATC
GAGATCGTCGGTATTGCCGACACCCAGAAAACCATCTGCACCGGCGTTGAGATGTTCAGGAAGCTGCTCGACCAGGGCCA
GGCCGGCGACAACGTCGGTATCCTGCTGCGCGGCACCAAGCGTGAAGACGTCCAGCGTGGTCAAGTGCTGTGCAAGCCAG
GTTCGATCAAGCCACACACCCACTTCACCGGCGAGATCTACGTTCTGTCCAAAGACGAAGGCGGCCGTCACACCCCATTC
TTCAACAACTACCGTCCCCAGTTCTACTTCCGCACGACGGACGTGACCGGTGCGATCGAGTTGCCAGAAGGCAAGGAAAT
GGTCATGCCGGGCGACAACGTGTCGATCACCGTCAAGCTGATCAACCCGATTGCCATGGAAGAAGGCCTGCGCTTTGCCA
TCCGCGAGGGCGGCAAAACCGTCGGCGCTGGGGTTGTGGCCAAGATTCTTGCC

Alignment

ORF - retro_taes_180 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 68.7 %
• Parental protein coverage: 99.24 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  FTRTKPHVNVGTIGHVDHGKTTLTAAITKVLAEAGSAKAVAFDEIDKAPEEKARGITISTAHVEYETAKR
          F.RTKPHVNVGTIGHVDHGKTTLTAAIT.VLA......A...D.ID.APEEKARGITI.TAHVEYETA.R
Retrocopy FERTKPHVNVGTIGHVDHGKTTLTAAITTVLAAKFGGEAKGYDQIDAAPEEKARGITINTAHVEYETANR

Parental  HYAHVDCPGHADYVKNMITGAAQMDGGILVVSAPDGPMPQTKEHILLARQVGVPSLVCFLNKVDAVEDEE
          HYAHVDCPGHADYVKNMITGAAQMDG.ILV.SA.DGPMPQT.EHILLARQVGVP....FLNK.D.V.D.E
Retrocopy HYAHVDCPGHADYVKNMITGAAQMDGAILVCSAADGPMPQTREHILLARQVGVPYIIVFLNKCDMVDDAE

Parental  LLELVEMELRELLSFYKFPGDDIPIIRGSALSALNGTNEEIGKNAILKLMDAVDSYIPDPVRVLDKSFLM
          LLELVEME.RELL..Y.FPGD..PII.GSA..A..G.....G..AI.KL.DA.D.YIP.P.R..D..FLM
Retrocopy LLELVEMEVRELLDKYDFPGDATPIIHGSAKLAMEGDKGPLGEEAIMKLADALDTYIPMPQRAVDGAFLM

Parental  PIEGIFSIQGRGTVVTGRIEQGVIKTGEDVEVIGLTESGPVKTTVTGVEMFKKMMDHGEAGDNVGLLLRG
          P.E..FSI.GRGTVVTGR.E.G..K.GE..E..G.......KT..TGVEMF.K..D.G.AGDNVG.LLRG
Retrocopy PVEDVFSISGRGTVVTGRVERGIVKVGEEIEIVGIADT--QKTICTGVEMFRKLLDQGQAGDNVGILLRG

Parental  LKRGDVERGQVVCKPGTVKTYKKFEAEIYVLTKDEGGRHTAFFSNYSPQFYFRTADICGKIELPPDVKMV
          .KR.DV.RGQV.CKPG..K....F..EIYVL.KDEGGRHT.FF.NY.PQFYFRT.D..G.IELP....MV
Retrocopy TKREDVQRGQVLCKPGSIKPHTHFTGEIYVLSKDEGGRHTPFFNNYRPQFYFRTTDVTGAIELPEGKEMV

Parental  MPGDNVTAIFELMLPVPLEPGLRFALREGGRTVGAGVVAKVMS
          MPGDNV.....L..P...E.GLRFA.REGG.TVGAGVVAK...
Retrocopy MPGDNVSITVKLINPIAMEEGLRFAIREGGKTVGAGVVAKILA

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_180 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
Aegilops tauschii	F775_06769	1 retrocopy	retro_atau_38,
Triticum aestivum	Traes_4AL_766B299B11	1 retrocopy	retro_taes_180 ,