Status
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Gene information
General information
TC004955 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: 5062830..5099969
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
    TC004955
    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_03879

    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: 30.0% (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 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
    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 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
    • >TC004955 RA
      MLCFLLIGL VFGTSSLKV EDLTGGSAT SLKFSMETP 
      DFAGPIKNV TVPIGREAV LSCSVTDLG HYKVGWMKA 
      DDQTILSLH TRVITHNPR ISVTHDDSL RTWQLRIRQ 
      LKESDRGCY MCQINTGEM KKQLGCVDV QVPPDIDDT 
      GTSSDVTVE EGDNVTLSC SASGHPEPR ILWRREDGD 
      HIILQDNPH DIKKVDTYS GPSLRLVRI DRKQMGSYL 
      CIASNDVPP AVSKRVTLS VNFAPKVQV QKALVGAPL 
      YSNVKLKCD VEAFPNSNN YWVKEQDEV LLNGFKYTT 
      QEKRSGYKV IMVLTIHNV NKSDIGTYT CVASNTMGK 
      SDASVRIYE IKITTTSTT TTTTTTTPS TTTTETNLI 
      LEITSNVRS TTTLQSDNT IGGVRGVEE DPSENWLFP 
      SVAPAPLEL ETHSSAAGN TLIFHFPVT LVLTVVLIL 
      R
    CDS sequence
    • >TC004955 RA
      atgttgtgc tttttattg attggttta gtgttcggg 
      acgagttct ctcaaagtt gaggatcta accggaggg 
      agtgccact tcgctcaaa ttttcaatg gaaacgcca 
      gacttcgct ggacctatc aaaaatgtt accgttccg 
      atcgggagg gaggcagtg ctcagctgc tccgttaca 
      gatctggga cattacaag gttggctgg atgaaggct 
      gatgatcag accattctg agtctgcat acaagagtc 
      atcacgcac aaccccaga atcagcgtc acacatgat 
      gacagtcta cgcacttgg cagctgaga attcgccag 
      ctgaaggaa tcggatcgt ggctgttat atgtgtcaa 
      atcaacacc ggggagatg aaaaagcag ctgggatgt 
      gtcgatgtg caagttcca ccggacatt gacgacacc 
      ggaaccagc agcgatgtc accgtagag gaaggtgat 
      aatgtcacg ttaagctgc agtgccagc ggacatcct 
      gagcctcgt attttgtgg cgacgtgaa gatggagat 
      cacattatt ctccaagac aatccacac gacatcaaa 
      aaagtggat acatacagc ggcccatcc ttacgtctc 
      gtaagaata gatcgcaag caaatgggt tcttattta 
      tgcatcgcc agtaacgac gttccacct gctgtcagc 
      aaaagggtg acactttcg gtgaacttc gctccaaag 
      gtgcaagtt cagaaagct ttggtcgga gcgccgctc 
      tattctaat gtaaagctc aaatgcgac gttgaagct 
      tttcccaac tccaacaac tactgggtt aaggaacaa 
      gacgaagtc ctgctcaac gggttcaag tacaccact 
      caggagaaa aggtcaggg tataaagtc atcatggtt 
      ttgaccatt cacaacgtc aacaagtcc gacattggg 
      acctacacg tgcgttgct tccaacaca atgggcaag 
      agtgacgcc tcagtgcgg atctatgaa attaaaatc 
      acaaccact tccaccacc actaccacc accacaaca 
      acaccgtca acgacgacg accgaaacg aacctaatt 
      ttagaaata accagcaac gttcgcagc actacgact 
      ctgcagtcc gataacaca atcggcggg gtgagaggc 
      gtggaagag gacccatcg gagaattgg ctatttccc 
      agcgtggcc ccggcccct ctggaatta gagacccac 
      tcgagtgcc gccggaaat acacttata tttcatttt 
      ccggtcacg ctagtgttg acagtggta cttatactc 
      aggtga
    mRNA sequence
    • >TC004955 RA
      gtgtaaaag tgattgatc gagttgttt cagccggtg 
      cgttgtaat tagcggtcg agtgtgaaa attcaaaaa 
      aatctgctc ccagttgaa gatggaatc ttagctcct 
      ttcacattc ggcaatcaa ttccacttc aaatcgaaa 
      atgttgcgt ttatgaaca ctcagttcg tttgattga 
      taagtaaaa atgggtgtc gaaggttaa ttagaaaag 
      ttgaagaca atgttgtgc tttttattg attggttta 
      gtgttcggg acgagttct ctcaaagtt gaggatcta 
      accggaggg agtgccact tcgctcaaa ttttcaatg 
      gaaacgcca gacttcgct ggacctatc aaaaatgtt 
      accgttccg atcgggagg gaggcagtg ctcagctgc 
      tccgttaca gatctggga cattacaag gttggctgg 
      atgaaggct gatgatcag accattctg agtctgcat 
      acaagagtc atcacgcac aaccccaga atcagcgtc 
      acacatgat gacagtcta cgcacttgg cagctgaga 
      attcgccag ctgaaggaa tcggatcgt ggctgttat 
      atgtgtcaa atcaacacc ggggagatg aaaaagcag 
      ctgggatgt gtcgatgtg caagttcca ccggacatt 
      gacgacacc ggaaccagc agcgatgtc accgtagag 
      gaaggtgat aatgtcacg ttaagctgc agtgccagc 
      ggacatcct gagcctcgt attttgtgg cgacgtgaa 
      gatggagat cacattatt ctccaagac aatccacac 
      gacatcaaa aaagtggat acatacagc ggcccatcc 
      ttacgtctc gtaagaata gatcgcaag caaatgggt 
      tcttattta tgcatcgcc agtaacgac gttccacct 
      gctgtcagc aaaagggtg acactttcg gtgaacttc 
      gctccaaag gtgcaagtt cagaaagct ttggtcgga 
      gcgccgctc tattctaat gtaaagctc aaatgcgac 
      gttgaagct tttcccaac tccaacaac tactgggtt 
      aaggaacaa gacgaagtc ctgctcaac gggttcaag 
      tacaccact caggagaaa aggtcaggg tataaagtc 
      atcatggtt ttgaccatt cacaacgtc aacaagtcc 
      gacattggg acctacacg tgcgttgct tccaacaca 
      atgggcaag agtgacgcc tcagtgcgg atctatgaa 
      attaaaatc acaaccact tccaccacc actaccacc 
      accacaaca acaccgtca acgacgacg accgaaacg 
      aacctaatt ttagaaata accagcaac gttcgcagc 
      actacgact ctgcagtcc gataacaca atcggcggg 
      gtgagaggc gtggaagag gacccatcg gagaattgg 
      ctatttccc agcgtggcc ccggcccct ctggaatta 
      gagacccac tcgagtgcc gccggaaat acacttata 
      tttcatttt ccggtcacg ctagtgttg acagtggta 
      cttatactc aggtgacac gtaatttgt tacggatac 
      tcgtaaaaa tagtgtgtt gtgagactt gctgtgaaa 
      tccatatca aaatgtttc gaacggaaa ttgtaatca 
      aattttggc caaatccgg aaaacgtgg tacgaattt 
      tgagtgttg atgctttac ttccagacg ttgcgacgt 
      attttttat taaactgat caaattggt tgttggagt 
      atatttttt atatgtagg gacgtggtt cggctattt 
      gcgcttgtc ttacaaatt ttattcccc agaggattt 
      gctctataa gtcgtatta ctggtagtc tgttttaga 
      aacgatatt ttattgaat caatctgga agagcttgt 
      tgttattgt cttattaga aaagtacag acggacgtg 
      aacagaaac taccacact cggaactaa ttacaaatt 
      tttatttcg gtttctgtt ggcggctgc attgattga 
      ttgtacata ccgtaatat tgtgactcc gaattattt 
      gtaagagtg taagattta gattctaaa tgttgtact 
      atacttgag tgtacatat cctgctacc tagcagtaa 
      cctgttact gaaaaaccg caataaaat gactttatt 
      acg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY