Status
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Gene information
General information
TC001632 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_007416.3: 1243561..1251337
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
    TC001632
    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
    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
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    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06562

    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: 20.0% (includes death as pupa, adult)

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


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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC001632 RA
      MKWFRKQGE APRLLSLSP LRSAESDQN PNVEILSPP 
      KHVKRRSRL EMSPAVWAR RQNNKNDTN FYNVEDSVI 
      IVEKSRRRY KSQPRSVSD REKRNPLLD RVKHTRLSC 
      FRSNSTAST LTDVPSCSS DQNTSDSQS LDLELLGVS 
      DKYDSLNRA SCFTAKLRA MSERYLQSS TSKFLNKLY 
      KSPGPLAES TPVKNPRRK KNLRAKLRS FSYGALPGL 
      EEFQAQEPE ILDDEDERL LLVDHEDSD SGIIVNDSG 
      LSDTFSGNS ESTRRNHPQ RALSLDRRE IFRNFSEKK 
      TTTLVRLVK RSPDEELGI FLTKSREVF HGFVVAHIV 
      PDGVAARQS SLMPGDEVI SINGRDISA LNMSEAKQS 
      LCTSNLQVD LLVCRKAMK ESFVDSTPS PLYKRHHYF 
      QKNSSSHGS YNKVLRRAV ASTTKNTES PFPSSPQTE 
      TNFCTLPRR PRSTICTFH TVILEKGPG RKSLGFTIV 
      GGRDSPKGA LGIFVKTIL ANGQAAEDG RLKAGDEIL 
      AVNGQVCHD ISHADAVLL FKSVKNGPI ALHVCRRNK 
      AKSLSTKAK SCTNLQAS
    CDS sequence
    • >TC001632 RA
      atgaagtgg tttcgcaag cagggcgaa gcgccccga 
      cttttgagc ctttcgccg cttcgctcc gccgaaagc 
      gaccaaaac cccaatgtt gagatactg tcgcccccc 
      aagcacgtc aaacggaga tcgcgtctt gaaatgtcc 
      ccagctgta tgggcccga aggcaaaat aacaagaac 
      gacacgaac ttttacaac gttgaggac agcgtcatt 
      attgtagaa aaatcgcgg agacggtac aagtcgcaa 
      ccgcggagt gtctccgac cgggagaaa cgcaacccc 
      cttttggac cgggtgaag cacacgcgt ctgtcctgc 
      tttcggtcg aactcaacc gcttcgacc ctaaccgac 
      gtgccctcg tgcagttcg gaccaaaac acaagtgac 
      agccaaagc ctcgacttg gaactgttg ggtgttagt 
      gataaatat gacagtttg aaccgtgct tcgtgtttc 
      acggccaag ttgcgcgca atgtccgag cggtatctc 
      cagtcttcc accagcaag ttcctaaac aaactttac 
      aagagtccg gggcctctg gccgagtcc actccggtc 
      aaaaatcca agacgcaag aagaacctc cgggcgaag 
      ctgcggagc ttctcctac ggcgcgctt ccgggcctt 
      gaggagttc caagcgcag gagcccgag attttggat 
      gacgaagac gagcggctg ctgctcgtc gaccatgaa 
      gactccgac agtgggatc atagtcaac gattcggga 
      ctctccgac actttcagc gggaacagc gaatccaca 
      cgccggaac cacccgcag agagcgctg tctttggac 
      cggcgcgag atcttccga aacttttcc gagaagaaa 
      accacgact ttggtccga ctcgtcaaa cgctcgccg 
      gacgaagaa ctcggcatt ttcctcacg aaaagtcga 
      gaggttttc cacggattc gtcgtcgcg cacattgtg 
      ccggacgga gtcgcggcc agacagtcc agccttatg 
      ccgggcgat gaggtgatc agcatcaac gggcgcgac 
      atctccgcc ttgaacatg tcggaagcg aagcaatcg 
      ctgtgcacc tccaacctg caggtggac ctcctggtc 
      tgccgcaag gccatgaag gagagtttc gtggactcg 
      accccaagc ccgctctac aaacgccac cactacttc 
      caaaagaac agctccagc catggcagc tacaacaaa 
      gtcctccgt cgagctgtg gcctcgacc acgaaaaac 
      acggaatcg ccattccct tctagtcct caaaccgaa 
      acgaacttc tgtaccctc cctcgacgg ccccgctcg 
      acgatttgc accttccac acggtgata cttgaaaaa 
      gggcccggg aggaagtcc ctaggattc actatcgtg 
      ggcggtagg gattccccc aaaggtgcg ttggggatt 
      ttcgtgaag acgatcctg gccaatgga caggcggca 
      gaggacggg aggttgaaa gcaggtgac gaaattttg 
      gccgttaat ggacaagtc tgccatgat atttcgcac 
      gcggatgct gttcttttg ttcaaaagt gtcaagaac 
      gggccgatt gccttgcac gtctgccga aggaacaaa 
      gcgaaatct ttgtcgacc aaagcgaaa tcctgtaca 
      aatctccaa gcgagttga
    mRNA sequence
    • >TC001632 RA
      tcgtcaagc tgtggcgat agcgaagtc actaagctg 
      ctcagttac atttctagt cgcgctctc gtgagaaaa 
      aatgtggct caaatcaag tttggcgaa aattgggat 
      taaggccaa ttgagcaga tgaagtggt ttcgcaagc 
      agggcgaag cgccccgac ttttgagcc tttcgccgc 
      ttcgctccg ccgaaagcg accaaaacc ccaatgttg 
      agatactgt cgcccccca agcacgtca aacggagat 
      cgcgtcttg aaatgtccc cagctgtat gggcccgaa 
      ggcaaaata acaagaacg acacgaact tttacaacg 
      ttgaggaca gcgtcatta ttgtagaaa aatcgcgga 
      gacggtaca agtcgcaac cgcggagtg tctccgacc 
      gggagaaac gcaaccccc ttttggacc gggtgaagc 
      acacgcgtc tgtcctgct ttcggtcga actcaaccg 
      cttcgaccc taaccgacg tgccctcgt gcagttcgg 
      accaaaaca caagtgaca gccaaagcc tcgacttgg 
      aactgttgg gtgttagtg ataaatatg acagtttga 
      accgtgctt cgtgtttca cggccaagt tgcgcgcaa 
      tgtccgagc ggtatctcc agtcttcca ccagcaagt 
      tcctaaaca aactttaca agagtccgg ggcctctgg 
      ccgagtcca ctccggtca aaaatccaa gacgcaaga 
      agaacctcc gggcgaagc tgcggagct tctcctacg 
      gcgcgcttc cgggccttg aggagttcc aagcgcagg 
      agcccgaga ttttggatg acgaagacg agcggctgc 
      tgctcgtcg accatgaag actccgaca gtgggatca 
      tagtcaacg attcgggac tctccgaca ctttcagcg 
      ggaacagcg aatccacac gccggaacc acccgcaga 
      gagcgctgt ctttggacc ggcgcgaga tcttccgaa 
      acttttccg agaagaaaa ccacgactt tggtccgac 
      tcgtcaaac gctcgccgg acgaagaac tcggcattt 
      tcctcacga aaagtcgag aggttttcc acggattcg 
      tcgtcgcgc acattgtgc cggacggag tcgcggcca 
      gacagtcca gccttatgc cgggcgatg aggtgatca 
      gcatcaacg ggcgcgaca tctccgcct tgaacatgt 
      cggaagcga agcaatcgc tgtgcacct ccaacctgc 
      aggtggacc tcctggtct gccgcaagg ccatgaagg 
      agagtttcg tggactcga ccccaagcc cgctctaca 
      aacgccacc actacttcc aaaagaaca gctccagcc 
      atggcagct acaacaaag tcctccgtc gagctgtgg 
      cctcgacca cgaaaaaca cggaatcgc cattccctt 
      ctagtcctc aaaccgaaa cgaacttct gtaccctcc 
      ctcgacggc cccgctcga cgatttgca ccttccaca 
      cggtgatac ttgaaaaag ggcccggga ggaagtccc 
      taggattca ctatcgtgg gcggtaggg attccccca 
      aaggtgcgt tggggattt tcgtgaaga cgatcctgg 
      ccaatggac aggcggcag aggacggga ggttgaaag 
      caggtgacg aaattttgg ccgttaatg gacaagtct 
      gccatgata tttcgcacg cggatgctg ttcttttgt 
      tcaaaagtg tcaagaacg ggccgattg ccttgcacg 
      tctgccgaa ggaacaaag cgaaatctt tgtcgacca 
      aagcgaaat cctgtacaa atctccaag cgagttgag 
      ccatatctt aaagaactg aagtaattt tatgtgcat 
      tgggtttgt gatacttgt attttaata aaacttttt 
      tataaaa
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