Status
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Gene information
General information
TC003396 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_007418.3: 4203084..4222616
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
    TC003396
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06913

    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)

    adult lethality - Number of animals showing the phenotype: 2 (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.
    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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003396 RA
      MQDIERHLQ TRITTLFVI FIQIVFTSS QDYEVTEIQ 
      CTFASGNSI GPRDSIIAK LRKPDGFKG NPLFADDRG 
      VDPETDHVC QIKPDLSDP TGLKYNLKI TDFSRCGVL 
      KRNGFVHVR VWFPQFPGV VMQSDQELI IMCKPPEPT 
      VIENKAAGF AGSFPHGAR VSGVVEETP GRLEYEVAL 
      YKEAPARIS NATNSELPV DQAVPIGTK LQLRARISP 
      ESAWKYVKL MEVTVSPDP DDPHMIGSV ALVKDGCRN 
      RDFASIIPH QPARYRERH NEVFLDFEA FLLSTMKER 
      STLWIHSQI KACMDPADC QPDFCLDLF EPSGHGRKR 
      RDVEAIEVV EAPELPSDL AKHNATIQY TKIKENLEY 
      TVLMPGEFY HRTAAMESS CSTFLAVAA ILGCLLFLS 
      AFVMCWLAS RLHSALVGT VNTNKNIDE LVRESRHYS 
      ESGYTGRAT TQ
    CDS sequence
    • >TC003396 RA
      atgcaagac attgagagg catttgcaa actaggatt 
      accactttg tttgtgatt ttcatacag attgtattc 
      acatcatca caagactat gaggtgaca gaaatccaa 
      tgcacattc gccagcggc aacagcata ggtccccgc 
      gactcaatt atagcaaaa ttaaggaaa cccgacggc 
      tttaaggga aatcctctc ttcgcagac gaccgagga 
      gtcgacccg gaaacggat cacgtctgc cagataaag 
      cccgatctc tcagacccc accggttta aaatataat 
      ctcaagatc acagatttt agcagatgt ggcgttttg 
      aaacgtaac ggctttgtc catgtgcga gtatggttt 
      ccgcagttt cccggtgtg gtgatgcaa tcggatcaa 
      gaactgatt attatgtgc aagccgccg gaacccacg 
      gttattgaa aacaaggca gctggtttt gctggcagt 
      tttcctcat ggagcccgg gtttcggga gtggttgaa 
      gaaactcca ggtcgtctg gagtacgaa gtagctctt 
      tacaaggaa gctccagcc agaatcagc aatgccacg 
      aatagtgag cttccagtg gatcaggca gtacccatt 
      ggtactaag ctgcagctc cgggcccgc atcagtcct 
      gaatctgct tggaagtat gtcaagttg atggaggtt 
      accgtcagt ccagaccct gatgacccg cacatgatt 
      ggaagtgtg gcactcgtt aaagatgga tgccgcaac 
      cgcgacttc gcctcgatc atcccgcac caaccagcc 
      cgataccgc gaacgccac aacgaagtt ttcctcgac 
      tttgaagcc ttccttcta agcacaatg aaagagcgc 
      tccactctc tggatccac tcgcaaata aaagcgtgc 
      atggacccg gccgactgc cagcccgac ttctgcctg 
      gacttgttc gaaccttca ggacacggt cgaaaacgg 
      cgtgacgtc gaagccatc gaagtggtg gaagccccg 
      gaactgcct tcagactta gcaaagcac aacgccacc 
      atacagtac acaaaaatc aaggaaaat ctcgaatat 
      acagttttg atgcctggg gagttctac caccgaacc 
      gcagcaatg gaaagctcg tgcagcact ttcctggca 
      gttgccgcg attttgggc tgtttgctg ttcttgtcc 
      gcgtttgtt atgtgctgg ttggcgtcc aggctgcat 
      tcggcgctc gtggggact gttaatacg aataaaaat 
      atagatgag ttggtcagg gagagtcgg cattattcc 
      gagtcgggg tacactgga cgggctacc acgcaatga
    mRNA sequence
    • >TC003396 RA
      tctggattg ccaaccttt agaaaatat taacggaaa 
      aaaaatagt aaaatttag taatacttt aaaattaaa 
      aattaaatt tatactccg gtaatctat gcgtaatga 
      tgtataggg ctggaatag tttaatagt tactacaga 
      ctcaggtag tttgaggca cgcataaac tttgtcaaa 
      ttttaatta attgataat tctaacggg ttctaactt 
      accatcttt tttgaaaac aatccgtat ccaaattac 
      aaaaatgtt taactcttg ctacgacat tttcggaat 
      ttccgaatt gcaaccaac tgtaataat tccgtcaaa 
      cgtaaagtg aggctgtgt gcagcttca attaaaatc 
      cgttttggt gtaacaatg gagctgtgt aaaccaatc 
      ccgtgtaaa attttccca attaagatt tttctaacc 
      tcgtaattt tttgcaatg gtagttttc ttttagatt 
      gtcttctaa acttgtagg gtatgctgc tacgacttg 
      ttcaccata tttgtagac taaaaacta taaaaaagg 
      tcattgttt tgcggtttt tcaatactt acaagcaat 
      aaacaattc acccaaatt taatttaaa aaaatgtta 
      aaagttgcg tagcggggc ggaacagac ctctagcaa 
      acacgcgga actactgtt cgtctcagt tattgcatg 
      tctttgaac aggtagctg tttaataag ttcacgatc 
      gcgaattca ttcactact tccgattaa gactactat 
      cggcttttc acacgcgtg agcttggcc agttggagc 
      tgttgattg actactgcc accggctag tgtttagtg 
      tttagtgat agaaaatgc aagacattg agaggcatt 
      tgcaaacta ggattacca ctttgtttg tgattttca 
      tacagattg tattcacat catcacaag actatgagg 
      tgacagaaa tccaatgca cattcgcca gcggcaaca 
      gcataggtc cccgcgact caattatag caaaattaa 
      ggaaacccg acggcttta agggaaatc ctctcttcg 
      cagacgacc gaggagtcg acccggaaa cggatcacg 
      tctgccaga taaagcccg atctctcag accccaccg 
      gtttaaaat ataatctca agatcacag attttagca 
      gatgtggcg ttttgaaac gtaacggct ttgtccatg 
      tgcgagtat ggtttccgc agtttcccg gtgtggtga 
      tgcaatcgg atcaagaac tgattatta tgtgcaagc 
      cgccggaac ccacggtta ttgaaaaca aggcagctg 
      gttttgctg gcagttttc ctcatggag cccgggttt 
      cgggagtgg ttgaagaaa ctccaggtc gtctggagt 
      acgaagtag ctctttaca aggaagctc cagccagaa 
      tcagcaatg ccacgaata gtgagcttc cagtggatc 
      aggcagtac ccattggta ctaagctgc agctccggg 
      cccgcatca gtcctgaat ctgcttgga agtatgtca 
      agttgatgg aggttaccg tcagtccag accctgatg 
      acccgcaca tgattggaa gtgtggcac tcgttaaag 
      atggatgcc gcaaccgcg acttcgcct cgatcatcc 
      cgcaccaac cagcccgat accgcgaac gccacaacg 
      aagttttcc tcgactttg aagccttcc ttctaagca 
      caatgaaag agcgctcca ctctctgga tccactcgc 
      aaataaaag cgtgcatgg acccggccg actgccagc 
      ccgacttct gcctggact tgttcgaac cttcaggac 
      acggtcgaa aacggcgtg acgtcgaag ccatcgaag 
      tggtggaag ccccggaac tgccttcag acttagcaa 
      agcacaacg ccaccatac agtacacaa aaatcaagg 
      aaaatctcg aatatacag ttttgatgc ctggggagt 
      tctaccacc gaaccgcag caatggaaa gctcgtgca 
      gcactttcc tggcagttg ccgcgattt tgggctgtt 
      tgctgttct tgtccgcgt ttgttatgt gctggttgg 
      cgtccaggc tgcattcgg cgctcgtgg ggactgtta 
      atacgaata aaaatatag atgagttgg tcagggaga 
      gtcggcatt attccgagt cggggtaca ctggacggg 
      ctaccacgc aatgagggc tagaacgtg ttagtactt 
      aatttaaac caaaaaacg tagtgagtt agttcctaa 
      agtcgcgga aattgccca ggaaaattt atcgtacgg 
      ttcagactg atttccaaa ggaataaac tcaagtata 
      gaacgtacc tcctagttt ttcaaaata tttattatt 
      tatttattt atttatttt taaacatgt agtttttct 
      gtgaagaaa gacgtcagg catgactta agtacgctt 
      taaaattaa gtacactac ccggggtga ataaaaatt 
      attgcttaa acttttatt tacttgcat actttttgt 
      tcactctgt atctgtacg taagtagta gtaatgtat 
      ttattcttg tgtaatatt aacccgata gatttaaaa 
      ataatattt gcaaaactg taatctcga gaacaggac 
      gcagtttta catttatct ccgctaata cagcaattt 
      tatcactga attgctata ttttgatga tacaaaaat 
      caattacgc agagatgag taattttga atatattgg 
      gttattacg acacattaa ttgtggggg caatatgta 
      tacattgaa tgccaatca atggaaaaa tgtataaaa 
      ggttatcac aaaacttaa atatttagc ctgtacttt 
      tctgttgta attaataca aattactag aaaggtact 
      ggaaagatt aaacaattt attctcgat ccacagccc 
      tataaataa aaaatgtaa cagattaag ttgtttaat 
      cattaatac taatttctc gggttggtt ctcgtttga 
      ttttttact tgtaaaaca aagtgtata tacggatat 
      ttatcgcaa attgggagt aaaggagtc ttccttcca 
      aatgttata ttgcaaatt ggggaaaat atatgaaca 
      agaatttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY