Status
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Gene information
General information
TC001194 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_007417.3: 12405398..12412457
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
    TC001194
    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
    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
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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_03153

    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: 2 (3 dpi)
    Days post injection


    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): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC001194 RA
      MSNLEIKTL EAEIAALER TLDEKKFRL QQLKSEHVS 
      CPYSDVLSS EEIVRYSRQ IIMPQICKS GQIKLKESK 
      ILIVGAGGL GCPASLYLA AAGVGEIHI VDYDEVELS 
      NLHRQILHY EHDIGLPKV QSASEKLKR LNSNIKIVP 
      LHIHAFSSI TDFVQKNKY DAVLDCTDN APTRYLLND 
      ICVIHNIPL VSGSALQME GQLTVYHYN NGPCYRCLF 
      PKPPPAHTV TNCGDGGVL GSVCGVIGV LQALETVKI 
      LTQMEGVLS GRLLIFDGS ETTFRNVKL RQRVTTCEV 
      CGDNPKIKE PVDYEQFCG ARAHDKVVN INILESEEN 
      VTVEQLRGV LDGNNIVID VRSELEFDM CRLPNTVNL 
      PYAKIRDNK SLGELEGLV KRAREGNKN VYLLCRRGN 
      DSQRATSYL RQNFSNTSV RFWNVKGGL HAYSKSIDP 
      TFPVY
    CDS sequence
    • >TC001194 RA
      atgtccaat cttgaaata aaaactcta gaagctgaa 
      atagcagct ctagaaagg acattagac gagaaaaaa 
      ttcaggctt caacaactc aaatctgaa catgtctct 
      tgtccttac tcggatgtt ttaagttca gaagagatt 
      gtacggtac agtcgtcaa ataataatg ccccaaatt 
      tgtaaatca ggccaaatc aagcttaaa gaaagcaaa 
      attttaatt gtgggtgct gggggctta ggatgtccc 
      gcttccctg tatcttgca gctgccgga gttggagaa 
      attcatatt gtagattat gatgaagtt gaactatcc 
      aacttgcat agacagatt ttacattat gagcatgat 
      atcgggcta ccaaaagta caatcagcc tctgagaaa 
      ttaaaaaga ctcaacagt aacatcaaa attgttcca 
      ttgcacatt cacgccttc agctctata accgacttt 
      gtgcagaag aataaatac gacgctgtc ttggactgc 
      actgacaat gcccccaca cgctattta ctcaacgat 
      atttgcgta attcacaac attccactt gtctcaggc 
      agtgcccta caaatggag ggccaatta acagtttac 
      cattataac aacggcccc tgttaccgt tgcctattc 
      cccaagcca ccaccagct cacactgta acaaattgt 
      ggagacggt ggtgttctg ggatcagtc tgtggcgta 
      atcggggtg ttacaagcc ctcgaaacc gtaaaaatt 
      ttgactcaa atggagggt gttctatca ggccggttg 
      ttgattttc gacggctcg gagacaact tttcgtaat 
      gtgaagttg cgacaaaga gttacgacg tgcgaggtt 
      tgcggggat aatcctaaa ataaaagaa ccggtggat 
      tatgagcag ttttgcgga gccagagct cacgataag 
      gtggtcaat attaatatt ttggagagc gaggaaaat 
      gtgactgtt gaacagctc agaggtgtt ttagacgga 
      aataatatc gtgattgat gtgcgatcg gaactggag 
      tttgatatg tgtaggtta ccaaatact gtaaattta 
      ccctatgcc aaaatacgg gataataag agtttgggc 
      gagttggag ggcctggta aaaagggca agggaaggg 
      aataaaaac gtttatttg ttgtgtagg cgaggaaac 
      gactctcaa agggccaca agttaccta cgacagaat 
      ttttccaac acttcggtc cgattctgg aatgttaaa 
      ggtgggctt cacgcctac tcgaagtcg attgatcca 
      acattccct gtttattaa
    mRNA sequence
    • >TC001194 RA
      atacattaa aagcacctt ttttttcaa aattaaact 
      tttttgtct tgttgttgg tgagtattg caagagcat 
      ttatgtaat aatacgcgc attattaac ataaattcc 
      caagcaaac tcatagttc cctaacttg actccctga 
      taattgcaa ctaatcttt ttctcccca catatttta 
      tcaatctcc tgaacgtct tccatttat agggtgtac 
      tttttctct gttctgagg ttttctgag aattgtttc 
      ggggccccg atcgttatt tcaagttta tttcattgc 
      ccttttttg actattttt gcaaactaa cttcatttt 
      ttttaaatt aaatacccc ctctacaat gtttttgag 
      ttttggagt atttatgtt tagtcttgg attaatgat 
      ataattttg tagttttga ccatgccgc gggaattaa 
      gcaaccaat attacgctc tgctattct aacctcagt 
      tttatttaa cctaaaaac aagaaaaaa atgtccaat 
      cttgaaata aaaactcta gaagctgaa atagcagct 
      ctagaaagg acattagac gagaaaaaa ttcaggctt 
      caacaactc aaatctgaa catgtctct tgtccttac 
      tcggatgtt ttaagttca gaagagatt gtacggtac 
      agtcgtcaa ataataatg ccccaaatt tgtaaatca 
      ggccaaatc aagcttaaa gaaagcaaa attttaatt 
      gtgggtgct gggggctta ggatgtccc gcttccctg 
      tatcttgca gctgccgga gttggagaa attcatatt 
      gtagattat gatgaagtt gaactatcc aacttgcat 
      agacagatt ttacattat gagcatgat atcgggcta 
      ccaaaagta caatcagcc tctgagaaa ttaaaaaga 
      ctcaacagt aacatcaaa attgttcca ttgcacatt 
      cacgccttc agctctata accgacttt gtgcagaag 
      aataaatac gacgctgtc ttggactgc actgacaat 
      gcccccaca cgctattta ctcaacgat atttgcgta 
      attcacaac attccactt gtctcaggc agtgcccta 
      caaatggag ggccaatta acagtttac cattataac 
      aacggcccc tgttaccgt tgcctattc cccaagcca 
      ccaccagct cacactgta acaaattgt ggagacggt 
      ggtgttctg ggatcagtc tgtggcgta atcggggtg 
      ttacaagcc ctcgaaacc gtaaaaatt ttgactcaa 
      atggagggt gttctatca ggccggttg ttgattttc 
      gacggctcg gagacaact tttcgtaat gtgaagttg 
      cgacaaaga gttacgacg tgcgaggtt tgcggggat 
      aatcctaaa ataaaagaa ccggtggat tatgagcag 
      ttttgcgga gccagagct cacgataag gtggtcaat 
      attaatatt ttggagagc gaggaaaat gtgactgtt 
      gaacagctc agaggtgtt ttagacgga aataatatc 
      gtgattgat gtgcgatcg gaactggag tttgatatg 
      tgtaggtta ccaaatact gtaaattta ccctatgcc 
      aaaatacgg gataataag agtttgggc gagttggag 
      ggcctggta aaaagggca agggaaggg aataaaaac 
      gtttatttg ttgtgtagg cgaggaaac gactctcaa 
      agggccaca agttaccta cgacagaat ttttccaac 
      acttcggtc cgattctgg aatgttaaa ggtgggctt 
      cacgcctac tcgaagtcg attgatcca acattccct 
      gtttattaa ttttgaata aaattttta tccacaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY