Status
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Gene information
General information
TC005067 Gene

The sequence from the iB fragment is matched against the genes from the official gene set. The matche(s) is/are visualizied in a genome browser.

NC_007420.3: 7134612..7137038
Sequence information
Transcripts / Proteins (1) Get mRNA sequence
Get CDS sequence
Get protein sequence
Ortholog information (from OrthoDB)

The information about the homolog genes in Drosophila is provided by OrthoDB http://www.orthodb.org/. The homologs are sorted according to their similarity score. For an orthology statement additional analysis are required.
The data basis for the orthologs is OrthoDB v9 containing OGS3 for Tribolium castaneum and 2015_04 (r6.07) for Drosophila melanogaster.

Closest fly homologs
    TC005067
    Gene ontology

    GO terms for Tribolium

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    There are no GO terms for Tribolium at the moment. You can help the community by providing some GO terms for this gene.


    GO terms for the homologous Drosophila genes


    Assign a GO term to this Tribolium gene by filling in the fields. Repeat to add several GO terms. Search AmiGO for the correct GO ID. Use only the most specific term - use "graph views" to browse related terms ("child terms" are more specific; the more general "parent" terms will be automatically linked). Only information based on Tribolium data should be entered - do not define terms just based on Drosophila knowledge. We will review this information and submit the annotation to the Gene Ontology consortium.


    Gene
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    The Tribolium gene the GO term is assigned to.
    GO ID *
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    The ID of the GO term you assign to the gene. Please enter only the ID of the GO term with proceeding 'GO:'. This information is mandatory.
    Evidence
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    The evidence code describes with which method the function or location, expressed by the GO term, was show for this gene. Please refer to this page for a definition of the evidence code and a decision tree.
    Reference *
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    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09567

    Attention! iBeetle is a first pass screen. Hence, the documented phenotypes need to be confirmed by independent experiments using non-overlapping dsRNA fragments! Phenotypes with a penetrance > 50% are frequently reproduced. See Schmitt-Engel et al. 2015 for details on reproducibility.

    iB sequence
    Phenotype after pupal injection
    Usually 10 injected animals

    Pupal injection procedure

    Day 0: 10 female pupae of the pBA19 strain (muscle enhancer trap line) were injected with dsRNA.

    3 days post injection (dpi): Hatch control: Pupal and adult lethality as well as metamorphosis defects (molting, eclosion) were documented. For mating, 4 males of the black strain were added.

    9 dpi: First egg-lay was collected and incubated for cuticle analysis. Adult lethality and egg production (reduced/ no egg-lay) was documented.

    11 dpi: Second egg-lay was collected and incubated for embryonic muscle analysis. Adult lethality and egg production (reduced/ no egg-lay) were documented.

    Note: The adult morphology was not analyzed systematically at 3/9/11 dpi. Only obvious phenotypes, visible without magnification, have been annotated.

    13 dpi: Egg productivity and Ovary analysis
    The percentage of hatched larvae was documented and not hatched larvae/ eggs were embedded for cuticle analysis (15 dpi). In case of a reduction of egg production, 4 injected females were dissected to analyze the gross morphology of the ovaries.

    14 dpi: Analysis of embryonic musculature and early embryonic development
    Offspring of the injected females (hatched and not hatched larvae/ eggs) were analysed for embryonic lethality and muscle defects.

    15 dpi: Analysis of larval instar 1 cuticle
    Offspring of injected females were analysed and cuticle phenotypes were annotated.

    22 dpi: Stink gland analysis
    Documentation of defects in abdominal and thoracic stink glands (colour, size, content) of the injected femals.

    Terms used in the pupal injection procedure

    larval pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    empty eggs
    Just empty shells are visible, no cuticle has been developed.
    strong defects
    L1 cuticle larvae which show severe defects. These strong defects are subdivided into three categories
    strongly fragmented (cuticle crumbs)
    No segments or appendages are identifiable, only residues of cuticle and bristles can be identified.
    cuticle remnants (with unidentifiable segments)
    Segments or parts of appendages are recognizable, but identity is not clear.
    cuticle remnants (with some identifiable segments)
    At least one segment or appendage is clearly regonizable.
    number of eggs on slide
    affected embryos usually (not always) do not hatch. Only the not hatched were used for cuticle analysis.
    For the embryonic muscle analysis the hatched as well as the not hatched were analysed.
    total number of affected eggs/embryos/larvae
    Summary of all different phenotypes/ phenotypic series which were annotated.
    inside-out
    The L1 larva shows a partial or complete inversion., e.g. bristles, appendages or parts of the abdominal segments are inverted into the interior of the cuticle.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    Please see the help page for more information
    Metamorphosis and survival

    Lethality 11 days after pupal injection: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Phenotype after larval injection
    Usually 10 injected animals

    Larval injection procedure

    Day 0: 10 female L5-6 larvae of the D17Xhom strain (females express RFP in the eyes and in the CNS; pupae express GFP in the thorax) were injected with dsRNA.

    11 days post injection (dpi): Pupal morphology Documentation of larval/ pupal death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of pupal head and appendages, pupal thorax, pupal thoracic musculature, pupal legs, pupal wings, pupal abdomen and pupal genital lobes.

    16 dpi: Adult morphology Documentation of larval/ pupal and adult death and defects of metamorphosis (eclosion, delayed development). Screening for alterations of adult head and appendages, adult thorax, adult elytra and hindwings, adult legs and cuticle properties. For mating 4 males of the black strain were added.

    19 dpi: Sieving and egg-lay Documentation of adult lethality and enduring metamorphosis defects.

    22 dpi: Ovary analysis (Fertility) In case of a reduction of egg production 4 females were dissected and the gross morphology of the ovaries were analysed.

    41 dpi: Fertility and stink gland analysis Documentation of defects in abdominal and thoracic stink glands development (colour, size, content) of the injected females. Check for fertility of injected larvae (no or decreased offspring).

    Terms used in the larval injection procedure

    pupal/ adult pantagmatic defects
    At least two tagmata (head, thorax, abdomen or terminus) show similar/ comparable defects.
    pupal molt not fulfilled
    The hatching from the larva to the pupa is interrupted. Either it dies as prepupa or the phenotype shows larval as well as pupal features.
    eclosion not fulfilled
    The emergence of the adult from the pupa stage is interrupted. This phenotype shows pupal as well as adult features.
    starved
    Dissected females show a strong resorption of fatbody predominately in the abdomen and the oogenesis is blocked. These are considered as eventually lethal phenotypes and the blocked oogenesis probably a secondary defect due to starvation.
    Metamorphosis and survival

    Lethalities 11 days after larval injection: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005067 RA
      MDALHRIDC SLSPISIDQ IEPNLFLGS LSAAKDVDT 
      LARYKITHI LTIDTCPLP RKILELKHI TTKYIQLSD 
      QPKEDLLSH FDDAGAFIL EGVTKGAVL VHCYFGVSR 
      SASVVIAYV MKKYELSYK EAFEKVKAK RGLVYPNHG 
      FVSQLHLYK EMGYKIDPN NMKYKLFRL NVAANHVKK 
      VKILPQNFM DLIKFDPGL TQTQPEPNV YRCKKCRRV 
      LASESNLMT HKVGGEVCT KTYFLEPLA WMNVTQTTQ 
      DKLYCPKCN SKVGSFSWI MGCLCPCGV QVAPAFYLT 
      PSKVDFTNV VKNVEMTF
    CDS sequence
    • >TC005067 RA
      atggacgca ttacacagg attgactgc agcttgtcg 
      cctatcagt atcgatcaa atcgaacca aatttattt 
      cttggttca ttgtctgca gccaaagat gtggacact 
      ctggcaagg tacaaaata acccacatt ctgacaata 
      gacacctgt cctttgcct cgaaaaatc ctggaactg 
      aaacacatc accacgaaa tacatccag ctgtctgat 
      caacccaag gaagattta ttgagtcac tttgacgat 
      gctggggct tttattctc gaaggtgtg accaaaggg 
      gctgtattg gtgcactgc tacttcggc gtctcccga 
      agcgccagt gttgttata gcctatgtc atgaaaaaa 
      tacgaattg agttacaag gaggctttt gagaaggtc 
      aaagcgaag aggggttta gtgtacccc aaccacggt 
      tttgtgtct caactccac ttgtacaag gaaatgggc 
      tacaaaatc gacccaaac aacatgaag tacaagctg 
      tttagatta aacgtcgcc gctaatcac gtgaagaaa 
      gtgaaaatc cttccacaa aacttcatg gatttgatc 
      aaatttgat cccgggttg actcaaacg cagcctgag 
      cccaacgtc tacagatgc aagaagtgt cgaagagtt 
      ttggcgtcc gagtccaat ctgatgacg cacaaggtt 
      gggggcgag gtttgtacc aaaacttat tttcttgaa 
      ccgctggct tggatgaat gtcactcag acaacccag 
      gataagttg tattgtcca aagtgtaac agtaaagtt 
      ggctcgttt agctggatc atgggttgt ctgtgccct 
      tgtggggtc caagtggcc ccggccttt tatttgaca 
      ccatccaag gttgatttc accaatgtt gtgaagaac 
      gttgaaatg actttttaa
    mRNA sequence
    • >TC005067 RA
      tcacaggct ttgaaacaa ttgacatta aagaattcg 
      gtcgctttg taaatgtta gatgtcaat cagaatcaa 
      aaataaata aatcagaat ttttacaac aaagtttga 
      tttctaaga cgattgtta ttgccgtgg aggaaggga 
      gagacgata gtgtgggtg acgcaatat tgtctatat 
      ttagggcta aaatgatca aagataacc ttatcaaag 
      tgtggcagt tgaaggttt aagtggcga aatggacgc 
      attacacag gattgactg cagcttgtc gcctatcag 
      tatcgatca aatcgaacc aaatttatt tcttggttc 
      attgtctgc agccaaaga tgtggacac tctggcaag 
      gtacaaaat aacccacat tctgacaat agacacctg 
      tcctttgcc tcgaaaaat cctggaact gaaacacat 
      caccacgaa atacatcca gctgtctga tcaacccaa 
      ggaagattt attgagtca ctttgacga tgctggggc 
      ttttattct cgaaggtgt gaccaaagg ggctgtatt 
      ggtgcactg ctacttcgg cgtctcccg aagcgccag 
      tgttgttat agcctatgt catgaaaaa atacgaatt 
      gagttacaa ggaggcttt tgagaaggt caaagcgaa 
      gaggggttt agtgtaccc caaccacgg ttttgtgtc 
      tcaactcca cttgtacaa ggaaatggg ctacaaaat 
      cgacccaaa caacatgaa gtacaagct gtttagatt 
      aaacgtcgc cgctaatca cgtgaagaa agtgaaaat 
      ccttccaca aaacttcat ggatttgat caaatttga 
      tcccgggtt gactcaaac gcagcctga gcccaacgt 
      ctacagatg caagaagtg tcgaagagt tttggcgtc 
      cgagtccaa tctgatgac gcacaaggt tgggggcga 
      ggtttgtac caaaactta ttttcttga accgctggc 
      ttggatgaa tgtcactca gacaaccca ggataagtt 
      gtattgtcc aaagtgtaa cagtaaagt tggctcgtt 
      tagctggat catgggttg tctgtgccc ttgtggggt 
      ccaagtggc cccggcctt ttatttgac accatccaa 
      ggttgattt caccaatgt tgtgaagaa cgttgaaat 
      gacttttta agtacctga tacgtgaga aacaataat 
      attatccca gaaaagtct tccaacttt ttttgtgat 
      tcttgaacg gaaggaagc cttttcaaa taaattcat 
      tttgggatt tgtatcaag ccaaataat cagtgcttc 
      attattaat tacaataat ttcatgttg tgttttgtg 
      gcaaaattg tgatattgt tataaatat ggtgtgatc 
      aaaaatttc cttgaagtt tggatgcct tcataattt 
      tcgaggaaa ataattagg gctgtctcc ggtaccggc 
      acactagtt tgactccca taactctcc tacttttaa 
      tttttcgtt tgagattgc tcacagtta ctgagaaaa 
      ttgttgtaa tagacaaaa aggaccact ttctgaata 
      cttgataac tttgaattt attaagttt gtcgacgcc 
      aatcgactt cttggaacg ttttgcatt tcaatttca 
      aattttgtt taaaaaaca aagattttt cgtaagctt 
      attttaaat tattaaaac ttaaaaaaa tatgctagt 
      taaacaaaa aaattccac ggtttttct cgttatctg 
      aactgtact ctgtactgc tattactat ttaatgcca 
      agattttaa atttgttgg gatggtcac tttagttct 
      aggtgaaaa gattagaac tcggaaact caaatttcc 
      gctcgatat ttcgaaaat gattcgtca tacattaaa 
      ctggcggtc tggttataa ttaaaaaaa tttttgaat 
      tatttttac ggcttaatt ttgatcgat cgttgtaga 
      atttttcaa gaattcaca cctttcaaa aaacgatat 
      ttttatttt tgtgaggct ttagggctc ctaaaggtg 
      caaaaacga caagttttc accgatttt cagttttgc 
      caacatcgg aggcatgcc aagtaatta ctactgttc 
      aacgcacat aatttgaaa tttttgatg gcactatat 
      ttgtaggat aagaaagta ttaaagtct atttttgtg 
      taatttttg gctccaaca ggagtaacg taataatgt 
      taatttaaa actcgttgt tataaggta acataaaca 
      aatgctaga gcaatactt ttaatgaat ataaaaaaa 
      aacagtgat acaataatc aacacttca ctgaacata 
      aatacagta ttgaccttt ccaggtatt atattgatg 
      gccaaaaac agataaaag aattaaatt gtacaacct 
      aca
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