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Gene information
General information
TC004399 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_007425.3: 7178653..7182578
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 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
    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.

    {{ goGene }}
    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.
    {{ blurEvidenceResult }}
    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.
    If you paste here the relevant section of the reference it is for us a great help to review your annotation. The quotation may be also be displayed to the users of iBeetle-Base.
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08080

    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.
    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.
    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (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: < 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.
    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
    Left: Right:
    Protein sequence
    • >TC004399 RA
    CDS sequence
    • >TC004399 RA
      atgtcgggc gccgattgt ttcaatgac ataccgact 
      gagattttt gcggcgaat ttaacagaa acaaacgga 
      gatatttac gaacattta ccaaacaat aatgtttgt 
      cctgtgaaa aattttgta accgacgta caacaacaa 
      aatcaaggc gccactagc acgggtggt ggtagccat 
      gaggaaagt actgattgt aacaatggt agtagcata 
      aaaaaagtg tcgaaaagt cgcagcaaa agcggaatg 
      ggccgaggt agacctcgg aaagcgctc gtcgcaatg 
      tatcacagt cagataagc ggcgataaa aacacaata 
      aaaatacga ataaaaaaa agtaatttt accgcacaa 
      gtgcaacta agcagtgca ccgaataaa aagaaaagc 
      ggaagacgg aaaaaacaa aaagttact tcggatacg 
      gacgtatcc gattatgaa tatacagca aagaaaagt 
      aagaatgag agtgacgta acgagcact caggatcag 
      gagcctcaa gagcaaagc gtttggggt gaacacgta 
      ccggaaaat gtgttgtat aaaattttt caaaacgtt 
      tgctttcaa gacggatgt ttgccgaat ctagtgaga 
      ttatgtcga gtgtgtaaa ctgtggcgg aacgtggct 
      ttgacacct tcgttgtgg aacaaagtc gatttgaat 
      tatgtaaaa gaaccattc aggactgat ttgcaatta 
      cattggtta atttataat cgattgtct tgttgccaa 
      gatttaaat ttgggtgaa tggaaggtt cgtgatata 
      caaattgca atcgaagct ctctgtacg aattgtcct 
      gaacttcag ggcatcaat ttgagtggt tggaaaggc 
      cttaacgcc gataatttg aaatattta acaacggaa 
      tgtaaaaaa ctggaacga ttagacttg tcgtcaatt 
      aactctaca tcggcaatt aattctcaa cctttggta 
      gcaatgggg caaacgatg agcagtcgt ttgacacat 
      ttggtactc gctcataat aaaatggcg ggttttact 
      caaataatg gcgtcaatt gctgcaaat tgtccaaat 
      ctccagctt ttagatata tccaacatt cgaaccttt 
      gctcacaac agcgcactt ttacatgtt gaaaaatta 
      caaattggt tgtccgaaa ttgcgagtt ttgcgtatt 
      acgaatagt caaatttgg ttggcacca gctagtttg 
      actgatcag gttgcctct cctggattt ccgcttttg 
      gaggagttg tctttggcc ggtttggaa gaagaccaa 
      acgaccact tctcgatct gttgacgat gacggaatt 
      gaaaggata ctaaaaaat agtacaaaa cttcgtttg 
      ttagatgtt agagggtgt attcgttta actgactct 
      ggtttagtt aaagtgccc gcatgggat ctcgaacat 
      ttatttttg agtgcctgt tatataact cggacacaa 
      aactctggt ctcgagttg attgtccag aaatggagt 
      cacagttta ctagaagtt gatctagca tggagcact 
      gcgacggaa tctttggat gcagctgtg atggctttg 
      gctgagaaa ggatctgaa tcaaagttg agaattgtg 
      aatttatgt ggctcttca gtgagttta gagccggtg 
      aaagccgta ctaaattgc cctaatttg cattccatt 
      aatttgcaa tcgtgccgg gctttacct cgagggatt 
      aaaaggtta tatacagga gatgccgtt caagagttg 
      aaacaaagt ttgcaaaat aggccaaag aatgatgta 
      agcgaatct gaaacagaa cagtcacca gctcatcca 
      attgcaaca gctgttgaa tag
    mRNA sequence
    • >TC004399 RA
      gatggcgca aaattatcg caacctgta acaccggca 
      atagcagcg ccacctata aaaatgttt gcatcttga 
      gtaacaagg tcaacaaca ctaaaatca gaaagtggc 
      caagttttc caaaatact gattttctc atcgaaata 
      gtgatgtga ttgtgattg gtggtggtt ttttcaact 
      attattgtg agttttagt agacgagtt tgtcagaga 
      cgcgaaaaa agtcactca atggcctgc agacaactt 
      tctatctga gctaccggt gcaaattgc acattttgt 
      aaggtaatt ttccaatca aaatgttgt acgccatct 
      acgacagga ccgtactta gatcggttt gctatagta 
      attaataaa ctttttcag gtttttttt tcgtacgtc 
      aatgatgtg gttaccaac ttgaaagaa aaaaatgtg 
      aaaaaaatc acaatgtcg ggcgccgat tgtttcaat 
      gacataccg actgagatt tttgcggcg aatttaaca 
      gaaacaaac ggagatatt tacgaacat ttaccaaac 
      aataatgtt tgtcctgtg aaaaatttt gtaaccgac 
      gtacaacaa caaaatcaa ggcgccact agcacgggt 
      ggtggtagc catgaggaa agtactgat tgtaacaat 
      ggtagtagc ataaaaaaa gtgtcgaaa agtcgcagc 
      aaaagcgga atgggccga ggtagacct cggaaagcg 
      ctcgtcgca atgtatcac agtcagata agcggcgat 
      aaaaacaca ataaaaata cgaataaaa aaaagtaat 
      tttaccgca caagtgcaa ctaagcagt gcaccgaat 
      aaaaagaaa agcggaaga cggaaaaaa caaaaagtt 
      acttcggat acggacgta tccgattat gaatataca 
      gcaaagaaa agtaagaat gagagtgac gtaacgagc 
      actcaggat caggagcct caagagcaa agcgtttgg 
      ggtgaacac gtaccggaa aatgtgttg tataaaatt 
      tttcaaaac gtttgcttt caagacgga tgtttgccg 
      aatctagtg agattatgt cgagtgtgt aaactgtgg 
      cggaacgtg gctttgaca ccttcgttg tggaacaaa 
      gtcgatttg aattatgta aaagaacca ttcaggact 
      gatttgcaa ttacattgg ttaatttat aatcgattg 
      tcttgttgc caagattta aatttgggt gaatggaag 
      gttcgtgat atacaaatt gcaatcgaa gctctctgt 
      acgaattgt cctgaactt cagggcatc aatttgagt 
      ggttggaaa ggccttaac gccgataat ttgaaatat 
      ttaacaacg gaatgtaaa aaactggaa cgattagac 
      ttgtcgtca attaactct acatcggca attaattct 
      caacctttg gtagcaatg gggcaaacg atgagcagt 
      cgtttgaca catttggta ctcgctcat aataaaatg 
      gcgggtttt actcaaata atggcgtca attgctgca 
      aattgtcca aatctccag cttttagat atatccaac 
      attcgaacc tttgctcac aacagcgca cttttacat 
      gttgaaaaa ttacaaatt ggttgtccg aaattgcga 
      gttttgcgt attacgaat agtcaaatt tggttggca 
      ccagctagt ttgactgat caggttgcc tctcctgga 
      tttccgctt ttggaggag ttgtctttg gccggtttg 
      gaagaagac caaacgacc acttctcga tctgttgac 
      gatgacgga attgaaagg atactaaaa aatagtaca 
      aaacttcgt ttgttagat gttagaggg tgtattcgt 
      ttaactgac tctggttta gttaaagtg cccgcatgg 
      gatctcgaa catttattt ttgagtgcc tgttatata 
      actcggaca caaaactct ggtctcgag ttgattgtc 
      cagaaatgg agtcacagt ttactagaa gttgatcta 
      gcatggagc actgcgacg gaatctttg gatgcagct 
      gtgatggct ttggctgag aaaggatct gaatcaaag 
      ttgagaatt gtgaattta tgtggctct tcagtgagt 
      ttagagccg gtgaaagcc gtactaaat tgccctaat 
      ttgcattcc attaatttg caatcgtgc cgggcttta 
      cctcgaggg attaaaagg ttatataca ggagatgcc 
      gttcaagag ttgaaacaa agtttgcaa aataggcca 
      aagaatgat gtaagcgaa tctgaaaca gaacagtca 
      ccagctcat ccaattgca acagctgtt gaataggat 
      gcttttttt tcttttatt attatgtcg aatgtgatc 
      gaaattatt taaatacac gtgtgccga gtttgatca 
      agcatttaa cgggaccaa aaagaaaaa aaaatttcc 
      ttgtatctc ggatgatga gattgaact ttgagccac 
      ttgtatgca aagcaatat tttaattat tttgatcac 
      atttcggat ataatttta taaatattt attatataa 
      tatacattg tataaaaaa tgtacgata attgtctga 
      atactattt taaaagttt tgaataatt tagataaat 
      actttacta atttaatac aggttatcg agtgtacaa 
      agtatttta ttaaaaatt ttccttgtt aggtctaaa 
      ttattgtct atgtaaagg atttaagaa aagaaatat 
      tagaggaga aagcggctg tatttattt gttgatcct 
      ctctaaacc aactacaag ctacaagtg agcaggtga 
      gtatcgttg tgactttat tattatatt agtaaagta 
      tttgcaaaa catgtctta cctgtctat acgtatgta 
      aaaattttt caattgaac accaatcaa aagtaaaaa 
      aaacaacca cacctgacc ttaatgcac cattttttg 
      ggtttttaa tcaaatgta ttttattaa tagattgtg 
      tacctataa tgtgtaatt gtctattag agcgaaaat 
      gtaattcta attatgttt acttgtttt gtaataaat 
      aaaaaaagt ttcgttat

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY