Status
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Gene information
General information
TC004373 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: 6964574..6968231
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
    TC004373
    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
    {{ 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.
    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
    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.
    Name
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    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00685

    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
    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: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection


    Pupal morphology
    wings size decreased - Number of animals showing the phenotype: 3

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004373 RA
      MKHFNTIFF LLLAFEINI YLTKDTKNA VVDNIYDIK 
      EFKKLIRTK TNVLVCYTN SIKQASQVI KVFREAADV 
      IKGQGTMVV MDCSGEAKK VCKKLKVTP DPFIFKHYK 
      NGEFNRDYD RKFTVSSMV NFMRDPTGD LPWEEDASA 
      SDIVHVPDA ETLAKFIRQ ESRPLMVMF YAPWCGFCK 
      TLKPEYVAA AKELKGHSV LAAIDVNKP ENAVIRTLY 
      NITGFPTLL YYKNGAMKF QYEGDNKRQ AIVNFMKNP 
      SKPVKVKEQ EWSEVDSEV VHLTTTNFD PVVKEEASL 
      LVMFYAPWC GHCKKIKPE YEKAAAKLK SDGIPGMMA 
      AVDATKEVS IADRFSVKG YPTMKYFTY GEHKFDINL 
      REATKIVEF MKNPKEPPP PPPPEKPWS EEESSVVHL 
      NEENFKSFL KKKRHALVI FYAPWCGHC KKAKPEFTK 
      AAEFFKDDP KVEFAAVDC TTYQGVCSA HEVSGYPTI 
      KYFSYLNKV VKAYNSGRT ADDFIAFMS DPEGNGSSQ 
      KTIVPQLTD ANFEEEISS KSAVLVMFY APWCKQCKE 
      IKPEYQKAT NELKQDGFI AQLASVDCS SNPVVTDKY 
      DIGTFPTFK LFLNGKFAA DFTGKSTKD DIKSFVVDV 
      KNRKNKEL
    CDS sequence
    • >TC004373 RA
      atgaaacat ttcaacacg atatttttt cttcttctg 
      gccttcgaa attaacatc tatttaacc aaggacaca 
      aaaaatgct gtcgttgat aacatttac gatatcaag 
      gagtttaaa aaattaatc aggacaaaa acgaacgtt 
      ttagtttgt tacacgaat tcgatcaag caggcgtcc 
      caagtgatc aaggtcttt agggaagcg gctgatgtt 
      atcaagggg caaggcacc atggttgta atggactgt 
      tcaggggag gcaaaaaaa gtttgtaaa aagttgaaa 
      gtcacccct gatcctttc attttcaaa cattacaaa 
      aatggggaa tttaaccgc gactatgac agaaaattt 
      accgttagt tcaatggtt aatttcatg agggacccc 
      actggggac ttaccttgg gaggaagac gcctctgct 
      agtgatatt gtgcacgtt ccggacgct gagactttg 
      gctaaattt atcagacag gaaagcagg cctttgatg 
      gtcatgttt tacgccccc tggtgtggt ttttgcaaa 
      actttgaag ccggaatat gtggcagcg gctaaagaa 
      ctgaaagga cactcggtt ctggccgcc attgatgta 
      aataagcct gaaaacgcc gtcattagg accttgtac 
      aatattacg ggattcccc acacttttg tattacaaa 
      aacggtgcg atgaaattc caatacgaa ggcgacaat 
      aagcgccaa gccatcgtc aattttatg aaaaacccc 
      tcaaagccg gtgaaagtc aaggaacaa gaatggtct 
      gaagtcgac agcgaagtc gtccactta accacgacc 
      aactttgac cccgttgtt aaagaggaa gcgtctttg 
      cttgtaatg ttttacgcc ccttggtgt ggccattgt 
      aagaaaatc aagcccgaa tacgaaaaa gccgccgct 
      aagctcaaa tcagacggg attccaggt atgatggcc 
      gcggttgat gcaacgaaa gaagtgagt attgctgac 
      cgtttctcg gtcaaaggc taccccacg atgaaatat 
      ttcacgtac ggggaacac aaatttgat attaatttg 
      cgagaagcg acaaaaatt gtcgagttt atgaaaaat 
      ccaaaagaa ccaccgccg cctccacca ccggaaaaa 
      ccatggtcg gaggaggag tccagtgtt gtgcatttg 
      aacgaagag aattttaaa agttttctt aaaaagaaa 
      cgacacgca cttgttatt ttctacgca ccttggtgt 
      ggccactgc aagaaagct aaacccgaa ttcaccaaa 
      gcagcggaa tttttcaag gacgatccc aaggttgag 
      tttgcagca gtggactgt acgacgtat cagggcgtt 
      tgttcggct catgaagtt agcggttat cccaccatt 
      aagtatttc agttatttg aataaagtt gttaaagcg 
      tacaactca ggccggacg gccgatgat ttcattgcg 
      tttatgtca gatccagaa ggcaatggc tcaagtcaa 
      aaaacaatt gttccacaa ttgactgat gccaacttt 
      gaggaagaa atctcaagc aagtcggct gtgcttgtc 
      atgttttat gcaccatgg tgcaaacag tgcaaagaa 
      ataaaacca gagtaccag aaagccacc aatgagttg 
      aaacaggac ggatttatt gctcaatta gcttcagtt 
      gactgtagt tcgaatcct gtagtcact gataagtac 
      gacattggc acatttccc acttttaag ttgttttta 
      aacggtaag ttcgcggcc gactttacc ggcaaaagt 
      acgaaagac gatattaaa agtttcgtg gttgatgtg 
      aaaaatcgt aaaaataag gaattgtga
    mRNA sequence
    • >TC004373 RA
      tcaaaagtc aacaacttg tcaattttt ttccataca 
      gagtcccgg ctttaaaaa ccgtaattt cgtcttagt 
      ttaacgtgg gccgacgca ttccacgtc caaaagtac 
      ttaaatgac ttaaataaa catgtttta agtcattaa 
      tttaaaaaa atccacgta aatttgtcc aaaacacga 
      tgaaacatt tcaacacga tattttttc ttcttctgg 
      ccttcgaaa ttaacatct atttaacca aggacacaa 
      aaaatgctg tcgttgata acatttacg atatcaagg 
      agtttaaaa aattaatca ggacaaaaa cgaacgttt 
      tagtttgtt acacgaatt cgatcaagc aggcgtccc 
      aagtgatca aggtcttta gggaagcgg ctgatgtta 
      tcaaggggc aaggcacca tggttgtaa tggactgtt 
      caggggagg caaaaaaag tttgtaaaa agttgaaag 
      tcacccctg atcctttca ttttcaaac attacaaaa 
      atggggaat ttaaccgcg actatgaca gaaaattta 
      ccgttagtt caatggtta atttcatga gggacccca 
      ctggggact taccttggg aggaagacg cctctgcta 
      gtgatattg tgcacgttc cggacgctg agactttgg 
      ctaaattta tcagacagg aaagcaggc ctttgatgg 
      tcatgtttt acgccccct ggtgtggtt tttgcaaaa 
      ctttgaagc cggaatatg tggcagcgg ctaaagaac 
      tgaaaggac actcggttc tggccgcca ttgatgtaa 
      ataagcctg aaaacgccg tcattagga ccttgtaca 
      atattacgg gattcccca cacttttgt attacaaaa 
      acggtgcga tgaaattcc aatacgaag gcgacaata 
      agcgccaag ccatcgtca attttatga aaaacccct 
      caaagccgg tgaaagtca aggaacaag aatggtctg 
      aagtcgaca gcgaagtcg tccacttaa ccacgacca 
      actttgacc ccgttgtta aagaggaag cgtctttgc 
      ttgtaatgt tttacgccc cttggtgtg gccattgta 
      agaaaatca agcccgaat acgaaaaag ccgccgcta 
      agctcaaat cagacggga ttccaggta tgatggccg 
      cggttgatg caacgaaag aagtgagta ttgctgacc 
      gtttctcgg tcaaaggct accccacga tgaaatatt 
      tcacgtacg gggaacaca aatttgata ttaatttgc 
      gagaagcga caaaaattg tcgagttta tgaaaaatc 
      caaaagaac caccgccgc ctccaccac cggaaaaac 
      catggtcgg aggaggagt ccagtgttg tgcatttga 
      acgaagaga attttaaaa gttttctta aaaagaaac 
      gacacgcac ttgttattt tctacgcac cttggtgtg 
      gccactgca agaaagcta aacccgaat tcaccaaag 
      cagcggaat ttttcaagg acgatccca aggttgagt 
      ttgcagcag tggactgta cgacgtatc agggcgttt 
      gttcggctc atgaagtta gcggttatc ccaccatta 
      agtatttca gttatttga ataaagttg ttaaagcgt 
      acaactcag gccggacgg ccgatgatt tcattgcgt 
      ttatgtcag atccagaag gcaatggct caagtcaaa 
      aaacaattg ttccacaat tgactgatg ccaactttg 
      aggaagaaa tctcaagca agtcggctg tgcttgtca 
      tgttttatg caccatggt gcaaacagt gcaaagaaa 
      taaaaccag agtaccaga aagccacca atgagttga 
      aacaggacg gatttattg ctcaattag cttcagttg 
      actgtagtt cgaatcctg tagtcactg ataagtacg 
      acattggca catttccca cttttaagt tgtttttaa 
      acggtaagt tcgcggccg actttaccg gcaaaagta 
      cgaaagacg atattaaaa gtttcgtgg ttgatgtga 
      aaaatcgta aaaataagg aattgtgag atttttact 
      gcatatttt ggaaataaa aaacggt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY