Status
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Gene information
General information
TC004973 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: 5383905..5390186
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
    TC004973
    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_03885

    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


    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: 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
    • >TC004973 RA
      MLFLLLVIL IICCLVKYH WDRRKLYLF AAKLQGPKA 
      YPVVGNGPL FWCKNEEIF NNFMAATAP YPSPVRLWV 
      GPKLVLFVK DPNQLQLIL QSSKITTKS FLYRFLEPF 
      LGKGLFTSS GPRQKHHRK LLQPLFSQR MIEGYCHLF 
      QKHSKKFVE DLRKNANGP EFNISTFLQ FTAFEATMD 
      LLLEDQDTH SIDYNEIPN YVRKFYEIV FTRVKSFWL 
      HLDIFFKLS SYYREQTKL QSLATTVIN EITETNVPK 
      IIEKIKAER KLADAEIRV PSMLESIAE MVMENPDCL 
      TMQDCTDHL MTFMATSQD TQSSAVAFT CMMLGAYPH 
      IQDLVVQEL REVMGKKTS LDLTDVSQL KYLEMCLKE 
      SMRLFPVGP FIFRDTTED FQFDKMVIP EGVTVILSI 
      YHAHRSPEH WEKPDEFYP EHFAPEAMS KRHPCAFIP 
      FSAGPRRCI AQHYSYTYM KILLATIVL NYEIECRFK 
      AEDVKLIAD ISIRPQQGY LIKLKDRTN
    CDS sequence
    • >TC004973 RA
      atgttgttt ctccttctt gtgattttg attatttgt 
      tgtctggtg aagtatcat tgggatagg cggaagttg 
      taccttttt gcagcgaag cttcaggga cctaaggcc 
      tatcctgtg gtgggaaat gggccacta ttttggtgc 
      aaaaatgaa gaaattttc aacaatttt atggccgcc 
      acggccccc tacccgtcc ccagtccgc ctctgggtg 
      ggcccgaaa ttggtcctt tttgtaaag gaccccaac 
      caacttcag ctcattttg caatcgtcc aaaatcaca 
      accaagtcg tttctttac cgatttctt gaacccttt 
      ctcggaaaa gggctcttt acgtcatcg ggccccaga 
      cagaaacat caccgcaag ttgctccaa cccctattt 
      tcgcaaagg atgattgag ggctattgc cacctgttc 
      caaaaacac tcgaaaaaa tttgtcgaa gacttgagg 
      aaaaatgcc aatggacct gaattcaac atttcaacg 
      ttcttgcaa tttacggcg ttcgaagct acgatggat 
      ttattgctg gaagatcaa gatacgcac tcgatcgat 
      tacaatgaa atcccgaac tatgtgaga aagttttac 
      gaaattgtg ttcactcga gtcaaaagt ttttggcta 
      catttggat atatttttc aaacttagt tcctactat 
      cgggagcaa acgaagttg caaagcttg gccacgact 
      gtcataaac gagattacg gaaacaaat gtgccaaaa 
      ataatcgaa aaaatcaaa gcggaacgg aaactggcc 
      gatgccgag ataagagtt ccatcaatg ttggaatcg 
      atcgctgaa atggtgatg gaaaacccc gattgtttg 
      accatgcag gactgcacc gaccactta atgactttt 
      atggcaaca agccaagac acccaaagt tcggccgtt 
      gccttcact tgcatgatg ctgggcgct tacccccac 
      atccaagac cttgtcgtc caagagtta agagaagtg 
      atgggcaaa aaaaccagc ctcgaccta accgacgtt 
      tcgcaactc aaatatctc gaaatgtgc ctcaaggaa 
      agcatgagg ttgttccct gttggcccg tttattttc 
      cgggacacc actgaagac ttccaattc gataaaatg 
      gtgattccg gaaggtgtg actgtgatt ttatcgatt 
      taccacgca caccgcagc ccggagcat tgggaaaaa 
      ccggatgaa ttttacccg gaacatttc gccccggag 
      gcgatgagt aaacgacac ccttgcgct tttatcccc 
      tttagtgca ggacctcgc agatgcata gcccagcat 
      tattcctac acttatatg aaaatcctg ctcgcgacc 
      attgtgctc aattacgag atcgagtgc cgattcaaa 
      gccgaagat gttaaacta atcgctgat atttcaatc 
      aggccgcaa caaggatat ctgatcaaa ttgaaagac 
      aggacgaac taa
    mRNA sequence
    • >TC004973 RA
      ttgtgtaac aaatcgagc aatgttgtt tctccttct 
      tgtgatttt gattatttg ttgtctggt gaagtatca 
      ttgggatag gcggaagtt gtacctttt tgcagcgaa 
      gcttcaggg acctaaggc ctatcctgt ggtgggaaa 
      tgggccact attttggtg caaaaatga agaaatttt 
      caacaattt tatggccgc cacggcccc ctacccgtc 
      cccagtccg cctctgggt gggcccgaa attggtcct 
      ttttgtaaa ggaccccaa ccaacttca gctcatttt 
      gcaatcgtc caaaatcac aaccaagtc gtttcttta 
      ccgatttct tgaaccctt tctcggaaa agggctctt 
      tacgtcatc gggccccag acagaaaca tcaccgcaa 
      gttgctcca acccctatt ttcgcaaag gatgattga 
      gggctattg ccacctgtt ccaaaaaca ctcgaaaaa 
      atttgtcga agacttgag gaaaaatgc caatggacc 
      tgaattcaa catttcaac gttcttgca atttacggc 
      gttcgaagc tacgatgga tttattgct ggaagatca 
      agatacgca ctcgatcga ttacaatga aatcccgaa 
      ctatgtgag aaagtttta cgaaattgt gttcactcg 
      agtcaaaag tttttggct acatttgga tatattttt 
      caaacttag ttcctacta tcgggagca aacgaagtt 
      gcaaagctt ggccacgac tgtcataaa cgagattac 
      ggaaacaaa tgtgccaaa aataatcga aaaaatcaa 
      agcggaacg gaaactggc cgatgccga gataagagt 
      tccatcaat gttggaatc gatcgctga aatggtgat 
      ggaaaaccc cgattgttt gaccatgca ggactgcac 
      cgaccactt aatgacttt tatggcaac aagccaaga 
      cacccaaag ttcggccgt tgccttcac ttgcatgat 
      gctgggcgc ttaccccca catccaaga ccttgtcgt 
      ccaagagtt aagagaagt gatgggcaa aaaaaccag 
      cctcgacct aaccgacgt ttcgcaact caaatatct 
      cgaaatgtg cctcaagga aagcatgag gttgttccc 
      tgttggccc gtttatttt ccgggacac cactgaaga 
      cttccaatt cgataaaat ggtgattcc ggaaggtgt 
      gactgtgat tttatcgat ttaccacgc acaccgcag 
      cccggagca ttgggaaaa accggatga attttaccc 
      ggaacattt cgccccgga ggcgatgag taaacgaca 
      cccttgcgc ttttatccc ctttagtgc aggacctcg 
      cagatgcat agcccagca ttattccta cacttatat 
      gaaaatcct gctcgcgac cattgtgct caattacga 
      gatcgagtg ccgattcaa agccgaaga tgttaaact 
      aatcgctga tatttcaat caggccgca acaaggata 
      tctgatcaa attgaaaga caggacgaa ctaaaattt 
      attctatca cagagttaa cagtttttt atatttaat 
      gttaggtga ctctttcac gcagttgtt cacgtggag 
      agaacggac ttttgtaac gttgggatc ttttaataa 
      attgtattt atagtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY