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Gene information
General information
TC001329 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: 14551205..14553414
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
    TC001329
    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
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    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_03172

    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


    Adult morphology
    low validity due to technical reasons - should be repeated: ovary phenotype not scorable,
    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
    • >TC001329 RA
      METSPPEKK DTQVQTETP EGATSVQVD EEKLAEWLR 
      KIYPKVKKE LDDSANSRA FKGYKLSTD SSDANCKLV 
      QILNVASQV KDAEIGSYV SAMSWNSTN QTLAVSCGI 
      IIWNIQKED DQVVAKVEG HGDGITQLS WIIDINSAK 
      NVLLASSGL DGLLSIWNF SLNESALTI KERHQIRSQ 
      LMPKNSESQ EETVKKIAR GVTCFDFSK YSPEIFVIG 
      GEGGLVVQC SLLGSRKLQ GSKDEAPLL DSVFKYYEG 
      HKGEVSSIK FSPNRREMF MTSGSDSEI RIYVVDQEE 
      PAQVIFLKQ PLLDVSWVP YEERIICGC GKNGVIEIY 
      NLLKGKAIE NTTKEKIKS EIMTQVEIN KTKSNIVAV 
      GTESGHVQM WRVPWALFG NLSL
    CDS sequence
    • >TC001329 RA
      atggagacc tctcctccg gagaagaaa gacacacaa 
      gtacaaact gagaccccg gaaggggcg accagtgtc 
      caagtagat gaggaaaag cttgcagaa tggttgaga 
      aaaatttat ccgaaagta aagaaagaa cttgatgat 
      agcgccaac tctcgggct ttcaaggga tataaatta 
      tcaactgat tcatctgat gctaactgc aaacttgtc 
      caaatttta aatgtggcg tcacaagtc aaagatgca 
      gagattggt tcttacgtt tctgcaatg tcttggaac 
      tccaccaat caaactttg gccgtttca tgtggtata 
      ataatttgg aacatacaa aaagaggac gaccaagtc 
      gtagccaaa gttgaaggg catggggac ggaattacg 
      caattatcg tggataatt gacataaat tcggccaaa 
      aacgtcctt ctggcatct tctggcctc gacggtctt 
      ttatcaatt tggaatttc agtcttaac gaatcggct 
      ttaaccatt aaagagagg catcaaatt aggtcgcaa 
      ctcatgccg aaaaatagc gaaagccag gaagaaaca 
      gttaagaaa attgcaaga ggggtcact tgttttgat 
      ttttccaaa tattcgcct gaaattttt gtgattgga 
      ggcgagggg gggttggtg gttcagtgc agtttgctt 
      gggagcagg aagttgcaa gggagtaaa gacgaagcc 
      ccgctcctt gattccgtt tttaagtat tacgagggg 
      cataagggt gaagtgagt tcgattaaa ttttcacca 
      aatcggcga gaaatgttt atgacgagt ggctctgac 
      tcggaaata cgaatttac gtcgttgac caagaagag 
      ccggcccaa gtaattttt ttgaaacaa cctttactt 
      gatgtttct tgggtccct tacgaagag agaattatt 
      tgtgggtgt ggtaaaaac ggtgttatt gaaatttat 
      aacttgttg aaaggcaag gctattgaa aatacgacc 
      aaagaaaaa atcaaatcg gaaattatg acccaagtc 
      gagataaat aaaacaaag agcaatatc gttgcagta 
      gggacggag agtggacac gtccaaatg tggagggtt 
      ccttgggct ttgttcgga aatttgtca ctttga
    mRNA sequence
    • >TC001329 RA
      gtcatttaa taaacattt aattgtaga gtatcctca 
      gttgggtct actcaaacc accgactac tcaaaagca 
      gaaatggag acctctcct ccggagaag aaagacaca 
      caagtacaa actgagacc ccggaaggg gcgaccagt 
      gtccaagta gatgaggaa aagcttgca gaatggttg 
      agaaaaatt tatccgaaa gtaaagaaa gaacttgat 
      gatagcgcc aactctcgg gctttcaag ggatataaa 
      ttatcaact gattcatct gatgctaac tgcaaactt 
      gtccaaatt ttaaatgtg gcgtcacaa gtcaaagat 
      gcagagatt ggttcttac gtttctgca atgtcttgg 
      aactccacc aatcaaact ttggccgtt tcatgtggt 
      ataataatt tggaacata caaaaagag gacgaccaa 
      gtcgtagcc aaagttgaa gggcatggg gacggaatt 
      acgcaatta tcgtggata attgacata aattcggcc 
      aaaaacgtc cttctggca tcttctggc ctcgacggt 
      cttttatca atttggaat ttcagtctt aacgaatcg 
      gctttaacc attaaagag aggcatcaa attaggtcg 
      caactcatg ccgaaaaat agcgaaagc caggaagaa 
      acagttaag aaaattgca agaggggtc acttgtttt 
      gatttttcc aaatattcg cctgaaatt tttgtgatt 
      ggaggcgag ggggggttg gtggttcag tgcagtttg 
      cttgggagc aggaagttg caagggagt aaagacgaa 
      gccccgctc cttgattcc gtttttaag tattacgag 
      gggcataag ggtgaagtg agttcgatt aaattttca 
      ccaaatcgg cgagaaatg tttatgacg agtggctct 
      gactcggaa atacgaatt tacgtcgtt gaccaagaa 
      gagccggcc caagtaatt tttttgaaa caaccttta 
      cttgatgtt tcttgggtc ccttacgaa gagagaatt 
      atttgtggg tgtggtaaa aacggtgtt attgaaatt 
      tataacttg ttgaaaggc aaggctatt gaaaatacg 
      accaaagaa aaaatcaaa tcggaaatt atgacccaa 
      gtcgagata aataaaaca aagagcaat atcgttgca 
      gtagggacg gagagtgga cacgtccaa atgtggagg 
      gttccttgg gctttgttc ggaaatttg tcactttga 
      acaattctt gaataaatt atgattttt aca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY