Status
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Gene information
General information
TC005436 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_007423.3: 13168485..13172929
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
    TC005436
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03949

    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: < 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005436 RA
      MSKETLEMG ELGNQKPKN QVEAPHSCC GVRHIQVFL 
      NFLLTFIAY GIRVNLSVA IVAMTTKAS ENPDIPIFD 
      WHNKSIILS SFFWGYIIP QVGAGQLAK KFGPKWFLV 
      ATMFICSIF GLLLPIMAE TMGSEGVMA SRALQGFCQ 
      GFIFPSIHN LLSYWVPVS ERSRLGTFV YAGGPLGTV 
      VSMIVTGIV SASWYGWPL IFYIYGVMG IVWSIAMAI 
      LGSNKPCES KIISEEERT YIETSLGHS SNQKPLPTP 
      WKSILTSLP VWAILVAHC GQNWGFWTL ITEIPSYMN 
      TVMHFQIKS NSYLSALPY FILWVLSFV FSGIADYLI 
      IKKYTSLGA TRKIFNSIG LICPAIALV FLGFMDEEH 
      KNLAIALLV VAVGLNSAI YSGFNVNHM DISPNHSGT 
      LMGITNCVS NIFSLLAPL FVQVVVTDE KDTMQWQLV 
      FGVASAIYV VSNFVFVFC GSGEVQEWN NEGKDERGK 
      V
    CDS sequence
    • >TC005436 RA
      atgtcgaag gaaacgctg gaaatgggc gagctgggc 
      aaccagaag ccgaaaaat caggtggag gcgccacat 
      tcttgctgc ggagttcgc cacatccaa gtcttcctc 
      aacttcctc ctcactttc atcgcctat gggattaga 
      gtcaatctc tcggtggca attgtggca atgactacg 
      aaagcgagc gaaaatccc gacattcca attttcgat 
      tggcacaac aaaagtatc atcctgtcg tccttcttc 
      tggggctat attataccc caagtgggg gctgggcaa 
      ctggccaaa aaattcggc cccaaatgg ttcctagtt 
      gccacaatg ttcatttgc tccattttc ggtctttta 
      ctaccaata atggccgaa acgatgggt tccgaaggt 
      gtgatggca tcaagagct ttgcaaggc ttttgccaa 
      ggctttatt ttcccatca attcataat ttattgagt 
      tattgggtt ccagtgtcg gaacggtca cgtctggga 
      acgtttgtt tacgctggg ggaccttta ggtaccgta 
      gtttccatg attgtcaca ggaattgtg tcagctagt 
      tggtacggc tggccttta attttttac atttatggg 
      gtcatgggt attgtatgg tcaattgct atggcgatt 
      ttagggtca aataaacca tgcgaaagc aaaatcatt 
      tcagaggag gaacgaacg tacattgag actagtttg 
      ggtcattcc tccaatcaa aaacctcta ccaactcct 
      tggaaaagc attttgacc agtttgccc gtctgggcg 
      attctagta gcccactgt gggcaaaac tggggcttt 
      tggacccta attaccgaa atcccgtca tacatgaac 
      acagtcatg catttccaa atcaaatcg aacagctac 
      ctaagcgct ttgccttac tttatttta tgggttcta 
      agtttcgtc tttagtggc attgctgat taccttatt 
      atcaaaaag tacacttcg ttgggcgcc acccggaaa 
      atcttcaac tcaattggg ctcatttgc ccagcaatt 
      gccctcgtt tttctaggt tttatggac gaggagcac 
      aaaaacctg gcaattgca cttcttgtg gtagcggtg 
      ggtttgaac tcggccatt tattccggg ttcaatgtc 
      aaccatatg gacatttcg cccaatcat tctggtact 
      ctaatgggg attaccaac tgtgtttcg aatattttt 
      tccttgcta gcgccactt ttcgtccaa gttgttgta 
      acagacgag aaagatacg atgcagtgg cagttggtt 
      tttggtgtc gcgtccgct atttacgtg gtcagcaat 
      ttcgtgttc gtcttctgc ggcagcggc gaagtccag 
      gagtggaat aacgaaggc aaggacgag cgcggaaag 
      gtgtag
    mRNA sequence
    • >TC005436 RA
      taaagactg atccttgcc tccaatcac ttatcttcc 
      actttactc gaattatgt tataatttg ggttagggg 
      ttatcaagt cggagtacc aaaaatctt cctattaat 
      aattagtgc gatttttgc ggacttttg aagggtgaa 
      agtgtgtct agtgttggc gttcgttga ggccacaag 
      tcgaaaaat tgtcgctaa aaagtgtca acacacgta 
      gaataaata ttagaggtc atgtagtgg tgcaccaag 
      cgcttacaa aatgatttg accacagtt ttgatcgtg 
      cggtcaaac attcgggtt ggaaattga accctttgg 
      taacatgtc gaaggaaac gctggaaat gggcgagct 
      gggcaacca gaagccgaa aaatcaggt ggaggcgcc 
      acattcttg ctgcggagt tcgccacat ccaagtctt 
      cctcaactt cctcctcac tttcatcgc ctatgggat 
      tagagtcaa tctctcggt ggcaattgt ggcaatgac 
      tacgaaagc gagcgaaaa tcccgacat tccaatttt 
      cgattggca caacaaaag tatcatcct gtcgtcctt 
      cttctgggg ctatattat accccaagt gggggctgg 
      gcaactggc caaaaaatt cggccccaa atggttcct 
      agttgccac aatgttcat ttgctccat tttcggtct 
      tttactacc aataatggc cgaaacgat gggttccga 
      aggtgtgat ggcatcaag agctttgca aggcttttg 
      ccaaggctt tattttccc atcaattca taatttatt 
      gagttattg ggttccagt gtcggaacg gtcacgtct 
      gggaacgtt tgtttacgc tgggggacc tttaggtac 
      cgtagtttc catgattgt cacaggaat tgtgtcagc 
      tagttggta cggctggcc tttaatttt ttacattta 
      tggggtcat gggtattgt atggtcaat tgctatggc 
      gattttagg gtcaaataa accatgcga aagcaaaat 
      catttcaga ggaggaacg aacgtacat tgagactag 
      tttgggtca ttcctccaa tcaaaaacc tctaccaac 
      tccttggaa aagcatttt gaccagttt gcccgtctg 
      ggcgattct agtagccca ctgtgggca aaactgggg 
      cttttggac cctaattac cgaaatccc gtcatacat 
      gaacacagt catgcattt ccaaatcaa atcgaacag 
      ctacctaag cgctttgcc ttactttat tttatgggt 
      tctaagttt cgtctttag tggcattgc tgattacct 
      tattatcaa aaagtacac ttcgttggg cgccacccg 
      gaaaatctt caactcaat tgggctcat ttgcccagc 
      aattgccct cgtttttct aggttttat ggacgagga 
      gcacaaaaa cctggcaat tgcacttct tgtggtagc 
      ggtgggttt gaactcggc catttattc cgggttcaa 
      tgtcaacca tatggacat ttcgcccaa tcattctgg 
      tactctaat ggggattac caactgtgt ttcgaatat 
      tttttcctt gctagcgcc acttttcgt ccaagttgt 
      tgtaacaga cgagaaaga tacgatgca gtggcagtt 
      ggtttttgg tgtcgcgtc cgctattta cgtggtcag 
      caatttcgt gttcgtctt ctgcggcag cggcgaagt 
      ccaggagtg gaataacga aggcaagga cgagcgcgg 
      aaaggtgta ggggttttg ccaatggaa caaatctgt 
      gataatttt agtgttatg ttaaaccaa tcaaattgt 
      tattggaat aaatttgct tatcgcga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY