RetrogeneDB ID: retro_taes_89

Retrocopy location

• Organism: Wheat (Triticum aestivum)
• Coordinates: 3B:372692578..372693991(-)
• Located in intron of: None

Retrocopy information

• Ensembl ID: TRAES3BF105800090CFD_g
• Aliases: None
• Status: KNOWN_PROTEIN_CODING

Parental gene information

• Parental gene symbol: None
• Ensembl ID: Traes_4DL_0D0BF450D
• Aliases: None
• Description: None

Sequence

>retro_taes_89
ATGGCAAACGACGATCCTTCACGCGTCCGTATCGTTCGCAAAAGCATCGTCAAGCCGTCCGTTGCGCGCCCCGGCGTGGT
GCTGGCTGTCTCTAACCTCGACCTGCTGTATCAGACGATGCCGATCGCGATGATCTGCGCCTACCGCACGCCCTCGGACG
GCCTGGGCTTCCAAGACGTCGTGGCCGCCTTCGAGGCCAAGCTGCCGTACCTGCTCGACCACTTCTTCCTCCTCGCCGGC
CGCATCGTCGCCAACCCGCACTCCGGGCTCCCGGAGGTGCACTGCGACAATCAAGGCGCGGAGCTCGTCGTCGGCGAGGT
CGGCGTGGCGCTGGGGAGCCTGGACTACGGCAGCCTGGAGGCGTCCTTGGCGAGGCTCGGCGTCCCCGTCCAGTACGACG
CGGGCGTCGCGCTGTCGGTGCAGCTGGTGTCGTTCGCCTGCGGCGGGTTCGCCGTGGCGTGGGGCACCAACCACGTGCTC
CTGGACGGGTGCACGCTGTGCATGATCGTCGACGTTTGGTCACAGCTCGCGCGGTCCGGGACCGAGAAGATCGCCGCCGC
CGCCGCCCCGAACCACGACCGCTCCATATTCCGCCCTCGCGCCGCGCCGTCGTACGGCGGGCTCGGAGAGGTGTTCATCC
CGCTTGAGAGCGAGCGTCTCGTCAACGCACTCACGGCCGGGAGCTCCCTGGTCGTTCGCACCTACTACGTCGAGCAGCGG
GACCTCGACATGCTGCGCGTGCAGGCGAGCGCCAGCGAGGAGCGCGGCGCGAGCGCGAGCCGCGTCGAGGCGGCGTGCGC
GTACCTGTGGAAGGTCCTGGCCGGCGTGGTGGGGTCGTCGGACGACAGGTGCCGCATGGGCTGGTGGGTGAACGGCCGGC
CGTGTCTCGCCAAAAAGGAAGCGGCTATGCGCAGCTACGTCGGTAACGTCACGTCGTTCGCGGTGGCGGAGGCGAGCGTG
GACGCGATCAAGCGGCGGCCGCTCCCGGAGGTCGCGTCGATGGTGCGCCAGTCGATCAGGGCGACGGCGACCTCCGAGCA
CTTCCAGGAGCTGGTGGACTGGGTGGAGGAGCGCAAGGGCAAGGGTCCAGGCAAGTACGTGGAGACGGCAACCGTCGGGC
TGGGCAGCCCGGTGCTGAGCGTGACGTCCATGGTGTCCTTTGGCCTCGACACTGACTTCGGCTTCGGGCAAGCCGCCATA
GCGATGCCGACGTGGGTGGACAGCGGGAGGCTCTGCTGCGGCTTCGTGACGATCATGGCGAGCCCGGGAACGGGAGGCCA
CGGCGGTGGCTCCTGGATCTTCACCATGTCCATTTGGCCGAGGCTGGCCGCCGCGCTCGACTCCGATGCCCACCGCATCT
TCAAGCCTCTGACCGCGGAGTATCTCGGCCTCGCTCAGTATAGCCGGCTCTGA

Alignment

ORF - retro_taes_89 Open Reading Frame is conserved.

Retrocopy - Parental Gene Alignment summary:

• Percent Identity: 75.82 %
• Parental protein coverage: 75.96 %
• Number of stop codons detected: 0
• Number of frameshifts detected: 0

Retrocopy - Parental Gene Alignment:

Parental  MANDS-SRVRVVRRSTVKASVTRPDTVLPVSNLDLLYYPMPLSMVCAYRRPSAGGGFVDVVAAFEAKLSS
          MAND..SRVR.VR.S.VK.SV.RP..VL.VSNLDLLY..MP..M.CAYR.PS.G.GF.DVVAAFEAKL..
Retrocopy MANDDPSRVRIVRKSIVKPSVARPGVVLAVSNLDLLYQTMPIAMICAYRTPSDGLGFQDVVAAFEAKLPY

Parental  LLDHFFPLAGRIVANPRSGLPEVHCDNQGAELVVGEVGLALGSLDFGDLDASLARVGVPVQYGADVALSV
          LLDHFF.LAGRIVANP.SGLPEVHCDNQGAELVVGEVG.ALGSLD.G.L.ASLAR.GVPVQY.A.VALSV
Retrocopy LLDHFFLLAGRIVANPHSGLPEVHCDNQGAELVVGEVGVALGSLDYGSLEASLARLGVPVQYDAGVALSV

Parental  QLVSFSCGGFVVVWGTNHGLADGCALYMIVDAWSELARSGT----IVAAPNYDRSVFCPRAAPSYGPSVG
          QLVSF.CGGF.V.WGTNH.L.DGC.L.MIVD.WS.LARSGT......AAPN.DRS.F.PRAAPSYG...G
Retrocopy QLVSFACGGFAVAWGTNHVLLDGCTLCMIVDVWSQLARSGTEKIAAAAAPNHDRSIFRPRAAPSYG-GLG

Parental  ELFMPLVSERLVNALTAGGSMLGRTYYVEERDIAMLRAQASGDGERG--ASRVEAVSAYLWKVLAATVGS
          E.F.PL.SERLVNALTAG.S...RTYYVE.RD..MLR.QAS...ERG..ASRVEA..AYLWKVLA..VGS
Retrocopy EVFIPLESERLVNALTAGSSLVVRTYYVEQRDLDMLRVQASASEERGASASRVEAACAYLWKVLAGVVGS

Parental  SDESCRMGWWVNGRRCLTTAPEEAMRNYVGNVTTFAVAEASVEAILRRPLPEIASMVRGSIRSTATDEHF
          SD..CRMGWWVNGR.CL....E.AMR.YVGNVT.FAVAEASV.AI.RRPLPE.ASMVR.SIR.TAT.EHF
Retrocopy SDDRCRMGWWVNGRPCL-AKKEAAMRSYVGNVTSFAVAEASVDAIKRRPLPEVASMVRQSIRATATSEHF

Parental  QELVDWVEEHKGKG
          QELVDWVEE.KGKG
Retrocopy QELVDWVEERKGKG

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_89 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 2 retrocopies.

Species	Parental gene accession	Retrocopies number
Triticum aestivum	Traes_4DL_0D0BF450D	2 retrocopies	retro_taes_48, retro_taes_89 ,