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Gene information
General information
TC005007 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: 637838..642732
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
    TC005007
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03889

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    appendages partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
    larva cuticle dorsal not closed - Penetrance (percentage of animals/eggs on slide): less than 30%
    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs tibiotarsus shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs femur shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs femur potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs tibiotarsus potentially fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax sometimes partiallynot present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen constricted - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005007 RA
      MSRKRITVK AKHPNPLFE RWLIEWRDK AKENDSKMQ 
      HCFSMALKS LKNYPLPLE TGKDCKILK GFGEKLCKM 
      LDDKLKQFK ANENTDIVT KVTTPKKTK PKEYIPQPG 
      SGAFAILLT LYEKSLEPN YPGHLTKAD VIKFGQHLC 
      NVSFTKAGP DTRYTAWSS MKTLLEKNL VVKRGNPAK 
      FSLTEEGTV LADKLFVQK KIEEFQNQD NSLPGPSCS 
      SLSKTNDNK EQHVSPTPC SASNEAVIL APNSFDIIL 
      LVDNQELNG SNGDVETDP IIMELKKLN VRFETRNLK 
      VGDYAWICR DFISNHELI LPYIVERKR MDDLGCSIK 
      DSRFHEQKF RLKQCGIPN LIYLVESYG KNEHVGLPL 
      TTLYQAATN TLVQDNFIV RFTNDTKAS CGYLASLTK 
      FLEKLFKPK TLVGCQKDD LQEFTLDDD LIQLMRFAD 
      FNISSSKTR HFKIKEMFV KQLLKIKGV SVEKALAVV 
      EKYQTPKNL KLAYSEISE VEGEKLLST LQFGANKKF 
      GPVLSKTVY KFFCNNY
    CDS sequence
    • >TC005007 RA
      atgagtcga aaaagaata acagtgaaa gccaaacac 
      cccaatcca cttttcgaa cgctggtta atcgagtgg 
      agagacaaa gccaaagaa aacgactcg aaaatgcaa 
      cactgcttt tccatggct ttgaagtcc ttaaaaaat 
      tacccttta ccactggag accggaaaa gactgcaaa 
      atattgaaa ggtttcggt gagaagttg tgtaaaatg 
      ttggacgac aaactgaag caatttaaa gccaacgaa 
      aacaccgat atagtgacc aaagtaaca actcctaaa 
      aaaactaaa ccaaaggaa tatattcca caaccgggt 
      tcaggggct tttgccatc ttgttaaca ctgtatgag 
      aaaagtctt gaacctaat tatcctgga catttaacg 
      aaagctgat gttataaaa tttggccaa catttgtgc 
      aatgtttca tttactaaa gctggacca gatacgaga 
      tacacagct tggtcgtca atgaagact ttattagag 
      aagaattta gttgtgaaa cgaggaaac ccagccaag 
      tttagtcta acagaagaa ggcacagtt ttggctgat 
      aaattattt gttcaaaag aaaattgaa gagtttcaa 
      aatcaggat aattcgtta cctggacct tcatgttca 
      agtttaagc aaaacaaat gacaataag gaacaacat 
      gtttcgcca acaccctgt agtgcaagc aatgaggct 
      gtgatttta gctccaaat tctttcgac attatttta 
      ttggttgat aatcaagaa ctcaacggg agtaacggt 
      gatgtggaa actgatcct attataatg gaactaaaa 
      aaactaaat gttagattt gagaccaga aatttaaaa 
      gtgggagat tatgcatgg atttgtcgc gattttata 
      tccaaccat gaattgatt ctaccgtac attgttgaa 
      agaaaaaga atggatgat ctaggttgt agtatcaaa 
      gattctagg tttcatgaa cagaaattc agattgaaa 
      caatgtggc atccccaac ttaatttat ttagttgaa 
      agttacgga aaaaacgaa catgttggc ctcccgtta 
      accacttta taccaagca gctacaaat actttagta 
      caagataat tttattgtg agatttaca aatgataca 
      aaagcatca tgtggttat ttagcgtct ttaacaaaa 
      tttcttgaa aagttattt aagccaaaa actttggta 
      ggttgtcag aaggatgac ttacaggaa tttacactt 
      gacgatgat ttgatacag ttgatgcgt tttgctgat 
      ttcaacata agttcttcc aaaacaagg cactttaaa 
      atcaaagaa atgttcgta aaacaactg ctaaaaatc 
      aagggagta tccgtggag aaagcactt gcagttgtt 
      gaaaaatat caaacacca aaaaattta aaattagca 
      tatagtgag attagtgaa gttgaagga gagaagctt 
      ttgtcaacg ctacaattt ggtgcaaat aagaaattt 
      gggcctgtt ttgagtaaa actgtgtat aagtttttc 
      tgcaataac tactaa
    mRNA sequence
    • >TC005007 RA
      cgaagttgt aaacagaaa cacagtttt aatttttga 
      aacgtttta agtgcaaaa atgagtcga aaaagaata 
      acagtgaaa gccaaacac cccaatcca cttttcgaa 
      cgctggtta atcgagtgg agagacaaa gccaaagaa 
      aacgactcg aaaatgcaa cactgcttt tccatggct 
      ttgaagtcc ttaaaaaat tacccttta ccactggag 
      accggaaaa gactgcaaa atattgaaa ggtttcggt 
      gagaagttg tgtaaaatg ttggacgac aaactgaag 
      caatttaaa gccaacgaa aacaccgat atagtgacc 
      aaagtaaca actcctaaa aaaactaaa ccaaaggaa 
      tatattcca caaccgggt tcaggggct tttgccatc 
      ttgttaaca ctgtatgag aaaagtctt gaacctaat 
      tatcctgga catttaacg aaagctgat gttataaaa 
      tttggccaa catttgtgc aatgtttca tttactaaa 
      gctggacca gatacgaga tacacagct tggtcgtca 
      atgaagact ttattagag aagaattta gttgtgaaa 
      cgaggaaac ccagccaag tttagtcta acagaagaa 
      ggcacagtt ttggctgat aaattattt gttcaaaag 
      aaaattgaa gagtttcaa aatcaggat aattcgtta 
      cctggacct tcatgttca agtttaagc aaaacaaat 
      gacaataag gaacaacat gtttcgcca acaccctgt 
      agtgcaagc aatgaggct gtgatttta gctccaaat 
      tctttcgac attatttta ttggttgat aatcaagaa 
      ctcaacggg agtaacggt gatgtggaa actgatcct 
      attataatg gaactaaaa aaactaaat gttagattt 
      gagaccaga aatttaaaa gtgggagat tatgcatgg 
      atttgtcgc gattttata tccaaccat gaattgatt 
      ctaccgtac attgttgaa agaaaaaga atggatgat 
      ctaggttgt agtatcaaa gattctagg tttcatgaa 
      cagaaattc agattgaaa caatgtggc atccccaac 
      ttaatttat ttagttgaa agttacgga aaaaacgaa 
      catgttggc ctcccgtta accacttta taccaagca 
      gctacaaat actttagta caagataat tttattgtg 
      agatttaca aatgataca aaagcatca tgtggttat 
      ttagcgtct ttaacaaaa tttcttgaa aagttattt 
      aagccaaaa actttggta ggttgtcag aaggatgac 
      ttacaggaa tttacactt gacgatgat ttgatacag 
      ttgatgcgt tttgctgat ttcaacata agttcttcc 
      aaaacaagg cactttaaa atcaaagaa atgttcgta 
      aaacaactg ctaaaaatc aagggagta tccgtggag 
      aaagcactt gcagttgtt gaaaaatat caaacacca 
      aaaaattta aaattagca tatagtgag attagtgaa 
      gttgaagga gagaagctt ttgtcaacg ctacaattt 
      ggtgcaaat aagaaattt gggcctgtt ttgagtaaa 
      actgtgtat aagtttttc tgcaataac tactaaata 
      taaaaataa attaattca tgtttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY