RetrogeneDB ID: retro_taes_176

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: IWGSC_CSS_2BL_scaff_8001441:1437..2394(-)
• Located in intron of: None

Retrocopy information

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

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_7DL_B73A0C80B
• Aliases: None
• Description: None

Sequence

>retro_taes_176
GGCGCGCAAATTTATCTGAAGCGCGAGGACCTGAACCACACCGGCGCGCACAAGATCAACAACACCATCGGCCAGGCCAT
GCTGGCCAAACGCATGGGCAAGCCGCGCGTGATCGCCGAGACCGGCGCCGGACAGCACGGCGTGGCCACCGCCACCATCT
GCGCGCGTTACGGCCTCGAATGTGTGGTCTACATGGGCAGCGAGGACGTCAAGCGCCAGAGCCCCAACGTCTACCGCATG
AAGCTGCTGGGCGCTACCGTGGTGCCGGTCGAATCCGGCAGCAAGACACTGAAAGACGCCCTCAACGAAGCCATGCGCGA
CTGGGTTGCCAATGTGGACAACACCTTCTACATCATTGGCACCGTCGCAGGCCCGCACCCTTACCCGATGATGGTGCGCG
ACTTCCAGAGTGTGATTGGCGAGGAGTGCCTCACGCAGATGCCAGAGATGACCGGTGGCAAACAACCCGACGCGGTGATC
GCCTGCGTGGGCGGCGGCAGCAACGCCATGGGCATCTTCCACCCCTACATCGCGCACGAAGCCACGCGCCTGATCGGCGT
CGAAGCAGCCGGTGAAGGCATGGACAGCGGTAAACATTCGGCCTCACTGCAGCGCGGCAGCCCCGGCGTGTTACACGGCA
ACCGCACTTATGTGCTGCAAAACGAGGACGGCCAGGTGACCGAGACGCACAGCATCAGTGCCGGTCTGGACTACCCCGGC
GTTGGCCCCGAACATGCCTTCCTGAAAGACATCGGCCGCGCCGAATACGTCGGCATCACCGACGCGGAAGCGCTGTCAGC
TTTTCATTACCTGTGCCGCACCGAAGGCATCATCCCGGCGCTCGAATCCAGCCACGCCTTTGCCTACGCGATGAAGCTGG
CTCCGACGATGCGCCCCGACCAGTCCATCCTGGTCAACCTCTCGGGCCGTGGCGACAAGGACATTGGCACGGTTGCC

Alignment

ORF - retro_taes_176 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 66.14 %
• Parental protein coverage: 84.8 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  GPLIYLKREDLNHTGAHKINNAVAQALLAKKLGKQRIIAETGAGQHGVATATVCARFGLECIIYMGAQDM
          G..IYLKREDLNHTGAHKINN...QA.LAK..GK.R.IAETGAGQHGVATAT.CAR.GLEC..YMG..D.
Retrocopy GAQIYLKREDLNHTGAHKINNTIGQAMLAKRMGKPRVIAETGAGQHGVATATICARYGLECVVYMGSEDV

Parental  ERQALNVFRMKLLGAEVRPVHSGTATLKDATSEAIRDWVTNVETTHYILGSVAGPHPYPMMVREFHKVIG
          .RQ..NV.RMKLLGA.V.PV.SG..TLKDA..EA.RDWV.NV..T.YI.G.VAGPHPYPMMVR.F..VIG
Retrocopy KRQSPNVYRMKLLGATVVPVESGSKTLKDALNEAMRDWVANVDNTFYIIGTVAGPHPYPMMVRDFQSVIG

Parental  KETRRQAMDKWGGK-PDVLVACVGGGSNAMGLFHEFVDDQDVRLIGVEAAGHGVDTDKHAATLTKGEVGV
          .E...Q.....GGK.PD...ACVGGGSNAMG.FH........RLIGVEAAG.G.D..KH.A.L..G..GV
Retrocopy EECLTQMPEMTGGKQPDAVIACVGGGSNAMGIFHPYIAHEATRLIGVEAAGEGMDSGKHSASLQRGSPGV

Parental  LHGSLSYVLQDADGQVIEPHSISAGLDYPGVGPEHSFLRDIGRAEYDSVTDQEALDAFKRTSRLEGIIPA
          LHG...YVLQ..DGQV.E.HSISAGLDYPGVGPEH.FL.DIGRAEY...TD.EAL.AF....R.EGIIPA
Retrocopy LHGNRTYVLQNEDGQVTETHSISAGLDYPGVGPEHAFLKDIGRAEYVGITDAEALSAFHYLCRTEGIIPA

Parental  LETSHALAYLEKLCPTLPDGVRVVLNCSGRGDKDVHTAS
          LE.SHA.AY..KL.PT.........N.SGRGDKD..T..
Retrocopy LESSHAFAYAMKLAPTMRPDQSILVNLSGRGDKDIGTVA

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_176 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_7DL_B73A0C80B	1 retrocopy	retro_taes_176 ,