Status
Please wait ...
Gene information
General information
TC012838 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_007424.3: 15777654..15779621
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
    TC012838
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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
    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    The reference where the function or location is described for the gene. Please enter a PubMed ID. This information is mandatory.
    Quotation
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    Name
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05333

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    beetle stock: bad (increased lethality),
    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    larva appendages shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larva dorsal not closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    antenna shortened - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 22.22% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 22.22% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012838 RA
      MHYTLFLSL NFLFIPCAF SLGLENNVC PSLIEYHIA 
      AVNPRCYHN PDVLSDVST VAERHGYQV EANSVTTKD 
      GYILTVHKI TSSKAQGPM KPMFIQHGI ATNSGPWVD 
      IGNRSIAFY FADKGWTVY LGNARGSTY SDKHVKLNT 
      HDAEFWNYR LDDIAAIDI PTQLEYVFT DSGQKSVYV 
      GHSMGTSVV FMFASQYPE LASQYLERI VALAPVAYL 
      DGAPGITLV KPVAKPLLS ILELFHVWG LFHHETLIH 
      TFLVKGLCP NLPGPCRIF LDLAFGRTS QFSDRDLLL 
      YFSYWPSGT SIFQLKQYL QIASSKKFQ MYDYGSKKN 
      KEMYGSEDP PTYPLEDLK LPVHLFYGE NDSLYRKKN 
      MKRLYDELG SSEKTAVSA GSEIGKKFN HIDFLYSEH 
      LIEQIYEKM EAVLGGSGG GGGDDGGLD GGDDEEEEK 
      EEEDDKEEE KDDDKEKED DKEEEKDEE KNEEEDDDK 
      DD
    CDS sequence
    • >TC012838 RA
      atgcattac acacttttc ctttcatta aattttctt 
      ttcatccct tgtgcattt tccttgggt ttggaaaac 
      aatgtttgt ccttcactt atcgaatat catattgcg 
      gccgtaaac cctcgctgt taccacaat cctgatgtt 
      ttatcagac gtcagcaca gtggcagaa agacacgga 
      tatcaagtt gaggcaaat agtgtgacc acaaaagat 
      gggtatatt ttaaccgtc cataagata acttcgagt 
      aaagcgcaa ggacccatg aaacccatg ttcattcaa 
      catgggatt gcgacgaat tcagggcct tgggttgat 
      atcgggaac cgatcgatt gcgttttat ttcgccgat 
      aaaggctgg acggtttat ttgggtaat gccagaggg 
      tcgacttat tcagacaaa cacgtcaag ttaaacaca 
      cacgatgct gaattttgg aattatcgt ttggacgat 
      atcgcagct attgatatt ccgacccag ttggaatat 
      gttttcaca gattctggt caaaaatca gtttatgtt 
      ggccattct atgggcacc tctgttgtg ttcatgttt 
      gcctcacaa taccctgaa ttagccagt caatatctc 
      gaaagaatt gttgcttta gctcctgtt gcttatctg 
      gacggagct ccgggtatt acgttagtt aaaccagta 
      gcgaaacca cttttaagt attttggaa cttttccat 
      gtttggggt ttattccac cacgagact ttgattcat 
      acatttttg gttaaagga ttatgtccg aatttaccc 
      ggaccttgc agaattttc ttagatctg gctttcggt 
      agaactagt caattttca gatcgcgac ctcttattg 
      tacttcagt tattggcct agtggcacg tcaattttc 
      caactgaaa cagtatttg caaattgcg agtagtaaa 
      aagttccaa atgtatgat tacggttct aagaaaaat 
      aaggaaatg tatgggtct gaagaccct ccaacttat 
      ccacttgaa gatttgaaa ttgccggtg catttgttt 
      tacggtgaa aatgatagt ttgtacagg aaaaagaat 
      atgaaaaga ttgtatgat gaacttgga agttcggaa 
      aaaacagca gtttcagct ggatctgag attgggaaa 
      aaattcaat cacattgat tttctttat tcggagcat 
      ttgattgaa cagatttat gagaagatg gaggcggtt 
      ttgggtggc agtggtggg ggtgggggt gatgatggt 
      ggtctagat ggtggtgat gatgaagaa gaagaaaaa 
      gaagaagag gatgataaa gaggaggaa aaagacgat 
      gataaagag aaagaggac gataaggaa gaagaaaaa 
      gatgaagaa aaaaatgaa gaggaagat gatgataaa 
      gacgactag
    mRNA sequence
    • >TC012838 RA
      tttaactac aatttaaat taaaaaaat gtaaaatac 
      cgttccatt gttagcaaa aagtcagtc tttttgtgt 
      cttccaaca tgcattaca cacttttcc tttcattaa 
      attttcttt tcatccctt gtgcatttt ccttgggtt 
      tggaaaaca atgtttgtc cttcactta tcgaatatc 
      atattgcgg ccgtaaacc ctcgctgtt accacaatc 
      ctgatgttt tatcagacg tcagcacag tggcagaaa 
      gacacggat atcaagttg aggcaaata gtgtgacca 
      caaaagatg ggtatattt taaccgtcc ataagataa 
      cttcgagta aagcgcaag gacccatga aacccatgt 
      tcattcaac atgggattg cgacgaatt cagggcctt 
      gggttgata tcgggaacc gatcgattg cgttttatt 
      tcgccgata aaggctgga cggtttatt tgggtaatg 
      ccagagggt cgacttatt cagacaaac acgtcaagt 
      taaacacac acgatgctg aattttgga attatcgtt 
      tggacgata tcgcagcta ttgatattc cgacccagt 
      tggaatatg ttttcacag attctggtc aaaaatcag 
      tttatgttg gccattcta tgggcacct ctgttgtgt 
      tcatgtttg cctcacaat accctgaat tagccagtc 
      aatatctcg aaagaattg ttgctttag ctcctgttg 
      cttatctgg acggagctc cgggtatta cgttagtta 
      aaccagtag cgaaaccac ttttaagta ttttggaac 
      ttttccatg tttggggtt tattccacc acgagactt 
      tgattcata catttttgg ttaaaggat tatgtccga 
      atttacccg gaccttgca gaattttct tagatctgg 
      ctttcggta gaactagtc aattttcag atcgcgacc 
      tcttattgt acttcagtt attggccta gtggcacgt 
      caattttcc aactgaaac agtatttgc aaattgcga 
      gtagtaaaa agttccaaa tgtatgatt acggttcta 
      agaaaaata aggaaatgt atgggtctg aagaccctc 
      caacttatc cacttgaag atttgaaat tgccggtgc 
      atttgtttt acggtgaaa atgatagtt tgtacagga 
      aaaagaata tgaaaagat tgtatgatg aacttggaa 
      gttcggaaa aaacagcag tttcagctg gatctgaga 
      ttgggaaaa aattcaatc acattgatt ttctttatt 
      cggagcatt tgattgaac agatttatg agaagatgg 
      aggcggttt tgggtggca gtggtgggg gtgggggtg 
      atgatggtg gtctagatg gtggtgatg atgaagaag 
      aagaaaaag aagaagagg atgataaag aggaggaaa 
      aagacgatg ataaagaga aagaggacg ataaggaag 
      aagaaaaag atgaagaaa aaaatgaag aggaagatg 
      atgataaag acgactaga cattcttaa tattattaa 
      ttgcttgta attgatctg ttatcttta aaaataaaa 
      tttttcgtt ttat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY