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Gene information
General information
TC013376 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_007420.3: 10315478..10321135
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
    TC013376
    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_05424

    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: 10.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    abdomen segment anterior number decreased - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 37.5% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013376 RA
      MAPPGVGSS SEKRHNDTM SANERDIVV LDGGFATQL 
      SCHVSQQID GDVLWSARF LATDKEAII DAHLDFLRA 
      GADLVITNS YQASIGGFM EHLKLTKDQ SYELIKESV 
      KLARIACQR YNKEFPNST PPMVVGSVG PYGASLHDG 
      SEYTGSYAK TTPVETMRE WHIPRIRAL VEAGVDLLA 
      LETIPCKIE AEMLVELLK KEFPNTKAW LSFSVRQDG 
      KSLAYGESF QEVARYCYD LNPQQLVAV GVNCVAPRL 
      VETLISGIN KDRKNPVPL VVYPNSGES YKVELGWID 
      RDKCEPVDT YVQKWLDLG VTWVGGCCR TYATDVSRI 
      RQEVEKWKR NKEEKRHQN GQCTQK
    CDS sequence
    • >TC013376 RA
      atggcaccg cctggggtc ggcagttct tcagagaag 
      cgccacaac gacacaatg agcgcaaat gaaagggac 
      attgtggtc ctggacggg ggcttcgcc actcaactc 
      agctgtcac gtgagtcag caaatcgat ggcgatgtc 
      ttgtggagc gcccggttt ttggccacg gataaagaa 
      gcgatcatc gacgcccat ttagatttt ctcagagcc 
      ggagctgat ctcgttatc accaactcg taccaggcg 
      agtattggg ggcttcatg gaacatctc aaactcact 
      aaagaccaa agttatgag cttattaaa gagtcagtg 
      aaactggca aggatcgcg tgtcaacgg tacaataaa 
      gagttccct aattcaacg cctccgatg gtcgtgggc 
      agcgtgggg ccctacggt gcctcctta cacgacggg 
      tccgaatat acagggtct tacgccaaa acgacccct 
      gttgagacc atgagggag tggcatata ccacgcatt 
      cgggctttg gtggaagca ggagtcgat ttgttggcc 
      cttgaaacc atcccttgt aaaattgag gccgagatg 
      ttagtagaa ctgctcaaa aaagaattc ccgaatacc 
      aaagcctgg ctctcattc agtgttcgg caagacggt 
      aagtccttg gcttacggt gagagtttc caagaagtt 
      gcgcgctat tgttacgac ttgaacccg caacaattg 
      gtagcagtg ggtgttaat tgtgtggct ccccgactc 
      gtcgaaacg ctcatttcc gggataaat aaagaccgg 
      aaaaatccg gttccacta gtcgtgtac cccaacagt 
      ggggagagt tacaaagtc gaactcggg tggattgac 
      cgagataaa tgcgagccg gtggacacg tacgtccaa 
      aagtggctc gatctcgga gtcacgtgg gtggggggc 
      tgctgccga acctacgcc actgacgta agccggata 
      cggcaagaa gtggaaaag tggaagcga aataaagag 
      gaaaaaaga catcagaac ggacagtgt acacaaaaa 
      taa
    mRNA sequence
    • >TC013376 RA
      ttatcatcg cctattgca caaaaagga ggagcgacc 
      gacgcacgg tcgctatca gcacatgtt ctagtctcg 
      tagtagtag cagtttgtg acgatttgt gatcaaaac 
      gaggaaaaa ttatggcac cgcctgggg tcggcagtt 
      cttcagaga agcgccaca acgacacaa tgagcgcaa 
      atgaaaggg acattgtgg tcctggacg ggggcttcg 
      ccactcaac tcagctgtc acgtgagtc agcaaatcg 
      atggcgatg tcttgtgga gcgcccggt ttttggcca 
      cggataaag aagcgatca tcgacgccc atttagatt 
      ttctcagag ccggagctg atctcgtta tcaccaact 
      cgtaccagg cgagtattg ggggcttca tggaacatc 
      tcaaactca ctaaagacc aaagttatg agcttatta 
      aagagtcag tgaaactgg caaggatcg cgtgtcaac 
      ggtacaata aagagttcc ctaattcaa cgcctccga 
      tggtcgtgg gcagcgtgg ggccctacg gtgcctcct 
      tacacgacg ggtccgaat atacagggt cttacgcca 
      aaacgaccc ctgttgaga ccatgaggg agtggcata 
      taccacgca ttcgggctt tggtggaag caggagtcg 
      atttgttgg cccttgaaa ccatccctt gtaaaattg 
      aggccgaga tgttagtag aactgctca aaaaagaat 
      tcccgaata ccaaagcct ggctctcat tcagtgttc 
      ggcaagacg gtaagtcct tggcttacg gtgagagtt 
      tccaagaag ttgcgcgct attgttacg acttgaacc 
      cgcaacaat tggtagcag tgggtgtta attgtgtgg 
      ctccccgac tcgtcgaaa cgctcattt ccgggataa 
      ataaagacc ggaaaaatc cggttccac tagtcgtgt 
      accccaaca gtggggaga gttacaaag tcgaactcg 
      ggtggattg accgagata aatgcgagc cggtggaca 
      cgtacgtcc aaaagtggc tcgatctcg gagtcacgt 
      gggtggggg gctgctgcc gaacctacg ccactgacg 
      taagccgga tacggcaag aagtggaaa agtggaagc 
      gaaataaag aggaaaaaa gacatcaga acggacagt 
      gtacacaaa aataacaca agtgccata aaaacttta 
      ttttgtaaa taaattata aaaactacg ttgttgata 
      cattatttc cgaaccctt gaccattcg ggggctgca 
      ccctgcgcc cttgcatgt gtttgagtt tcaatctgt 
      ctaactcgt tcacgcggg accgtgcgt gctctaacc 
      ggtgccacg ccatttgga gaaccttct gtgaggcgt 
      agcctgagc cttcatggg gctgacccg ttgacactt 
      gggtcagat aattgatct gttccgtta atttgctct 
      cgaccgccc ccaaagtct taaggaagg tttgagtgt 
      ggttttcgg cttgtttta agctggatt tctctttac 
      taagctcga cgaaaactt gtcctggaa tttttcagg 
      ttaaacagt tttgaggtt acgggcaaa aaattacct 
      gcactgtgt aggcacgta attatgtct ttctcgata 
      gagtcgagc acttggatt cgttccatt ggcgcggtc 
      attctaata ttctaggtt ttaacgcag aaatcgata 
      aaaatactt tttgttttg gtatttttt gacagaaag 
      tgacagaag cacaaacgc catcttacg aaacagcga 
      agtatttga gtttgagta atacccgct aatagccac 
      atgaactaa tttttgtaa ataacacgt ttatcttgt 
      aaattgcta ttagtaata cggcactgg caaaattaa 
      gtaacgtac gctatcttg ttgataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY