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Gene information
General information
TC003443 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_007418.3: 5195267..5197035
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
    TC003443
    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
    {{ goGene }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09748

    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)

    adult lethality - Number of animals showing the phenotype: 2 (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
    • >TC003443 RA
      MENGTIPVH KLTSNPTAA WREISKNQK IIKLNVKSP 
      SKPVEPNKV RFVCMSDTH SLIRNLVFD VPDGDVFIH 
      AGDFTKCGQ KEEVMQFNK WLVSLPHKH KIVISGNHE 
      LSFDKKFSD YFKKTASAR HTGSLEDEV PNYGNTKDN 
      ISDAVNTDN IRQYLTNCT YLEDSGIDI YGIKLYGTP 
      WQPEFGGWA FNLERGEEC LSKWNLIPN DTDVLITHT 
      PPLGFGDLV CSGVRAGCV ELLTTVQQR VKPKYHVFG 
      HIHEGYGVF SDGKIIYIN ASTCDINYI PKNLPIVFD 
      VPLPEGQSK H
    CDS sequence
    • >TC003443 RA
      atggaaaac ggcactatc ccggtccac aaactaaca 
      agtaaccct accgcggcg tggagggaa atatcaaag 
      aaccaaaaa attatcaag ctcaatgtc aagtctccc 
      tcaaaacct gtggaacca aataaagta cgattcgtt 
      tgtatgagc gacacccac tcccttata agaaacctg 
      gtgttcgac gtacccgac ggcgatgtg ttcatccac 
      gctggggat tttacgaaa tgtggccag aaagaggaa 
      gtgatgcag tttaataaa tggctagta tctttgccc 
      cacaaacac aagattgta atcagcggc aatcacgaa 
      ttgagtttc gataaaaaa ttctctgat tatttcaaa 
      aaaacggcg agtgcaaga cacaccgga tcactcgaa 
      gatgaagtc cccaattat ggcaatacg aaagataac 
      atcagtgat gcagtcaat actgataac atcaggcag 
      tatttaaca aattgcacg tatttggaa gattcgggg 
      attgatatt tatggcata aaactgtac ggaactcct 
      tggcaacct gaattcggt ggctgggct tttaattta 
      gagaggggt gaagagtgt ctttccaag tggaatttg 
      attccaaac gatacggac gttttaata actcatacg 
      ccgcctctg gggtttggc gatttggtc tgttcgggg 
      gttagagct ggatgcgta gagttgtta acgacggtc 
      caacaaagg gtcaaaccc aaatatcac gttttcgga 
      cacatacat gaaggttat ggagtgttc tcggacgga 
      aaaatcatc tatatcaac gcttcaaca tgtgatatt 
      aactatatt ccaaaaaac ctacctata gtttttgat 
      gttccttta ccagaaggc cagtcgaaa cactag
    mRNA sequence
    • >TC003443 RA
      gttgggtaa ttcgcgatc agaacgtaa caagagatg 
      gaaaacggc actatcccg gtccacaaa ctaacaagt 
      aaccctacc gcggcgtgg agggaaata tcaaagaac 
      caaaaaatt atcaagctc aatgtcaag tctccctca 
      aaacctgtg gaaccaaat aaagtacga ttcgtttgt 
      atgagcgac acccactcc cttataaga aacctggtg 
      ttcgacgta cccgacggc gatgtgttc atccacgct 
      ggggatttt acgaaatgt ggccagaaa gaggaagtg 
      atgcagttt aataaatgg ctagtatct ttgccccac 
      aaacacaag attgtaatc agcggcaat cacgaattg 
      agtttcgat aaaaaattc tctgattat ttcaaaaaa 
      acggcgagt gcaagacac accggatca ctcgaagat 
      gaagtcccc aattatggc aatacgaaa gataacatc 
      agtgatgca gtcaatact gataacatc aggcagtat 
      ttaacaaat tgcacgtat ttggaagat tcggggatt 
      gatatttat ggcataaaa ctgtacgga actccttgg 
      caacctgaa ttcggtggc tgggctttt aatttagag 
      aggggtgaa gagtgtctt tccaagtgg aatttgatt 
      ccaaacgat acggacgtt ttaataact catacgccg 
      cctctgggg tttggcgat ttggtctgt tcgggggtt 
      agagctgga tgcgtagag ttgttaacg acggtccaa 
      caaagggtc aaacccaaa tatcacgtt ttcggacac 
      atacatgaa ggttatgga gtgttctcg gacggaaaa 
      atcatctat atcaacgct tcaacatgt gatattaac 
      tatattcca aaaaaccta cctatagtt tttgatgtt 
      cctttacca gaaggccag tcgaaacac taggttagt 
      atcaatcga aaacgcttt tataatcta tttattgtg 
      tatatttaa gttctttta tacaaaata atttgcaaa 
      aaaatgtat agagaaagc tcgtgtctt ttatttctt 
      gtacaaaaa taagccata attatatac actacaaga 
      ccatttcga aataataaa aaaatattt tattgcaag 
      aacctaatt gtaattagc gtaaatatt atggcatgc 
      acctgtaaa ggtctaaat tataattta aaaaaatat 
      gaatttgta tctcatcat caattagtt ataaagaaa 
      taaaacgaa catcttcta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY