Status
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Gene information
General information
TC031408
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC011053,TC011055,TC011054
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: 5243457..5361929
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
    TC031408
    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 *
    {{ blurReferenceResult }}
    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
    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.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09002

    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: 1 (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
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (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
    • >TC031408 RA
      MKSKNVIMW TVCGENGRI LDTVIAACY FWHITDIHY 
      YAHHSDAKK GCWRADYDG GSNARNQRR SMGQYGDYS 
      CDAPWELIE SAAKTMMSR QNDNVEFVL WTGDALSHN 
      ARKLHENVK LQLLQNLTD LLRKTFSSQ FVFPALGHD 
      DPMAKKELG RMWSRWLPT DSMHTFAKG GYYMIERKT 
      LKLQIVVLN TNLMKKSDN DDEAAEQWK WLHTVLEKF 
      QRNGETVYL VGHMPPGSD ERQRGFSPA HSVYTDYHN 
      KKYLELVRK YADIIVGQF FGHLHSDTF RVIYGTSGR 
      PVSWALLAP SITPKRTTD GANNPGLRI YKFDKDTGQ 
      VLDYTQYYL DLSRANSNS KGEAEWTVE YNFSSYYGI 
      TEITPNSLH QLADKLTSV NHNTFFDRY YTANAVRMY 
      SNPQTGCDA NCAHTHYCA ITRVDYQEF ANCLKTAAS 
      ALASSSSLI RAPNFGLCG LVFVISKV
    CDS sequence
    • >TC031408 RA
      atgaagagt aaaaatgta ataatgtgg acggtttgt 
      ggggagaac ggacggata ttggataca gttattgct 
      gcatgttat ttctggcac atcacggac atccattat 
      tacgctcat cacagcgac gccaagaaa ggctgctgg 
      cgggcggat tacgacgga ggatccaat gccaggaac 
      cagaggagg tccatgggg cagtatggg gactacagt 
      tgtgatgca ccatgggag ctgatcgag tcagcggca 
      aaaaccatg atgtcgagg caaaacgac aacgttgag 
      ttcgtttta tggacaggg gacgctctc tcgcacaac 
      gcccgaaag ttgcacgaa aacgtcaag ctgcagctc 
      ctccagaac ctcaccgac ctgctgcgg aagaccttc 
      agctcccag ttcgtgttc cccgccctc gggcacgac 
      gaccccatg gccaagaag gagctgggc aggatgtgg 
      agtcgctgg ctgcccacc gactccatg cacaccttc 
      gccaaagga ggatattac atgatagag cggaaaacg 
      ctcaagctg caaatagtc gtcctaaac acaaaccta 
      atgaagaaa agcgacaac gacgacgag gctgcagaa 
      cagtggaaa tggctccac acagtcctg gagaaattt 
      cagcgaaac ggagaaacg gtctacctc gtcggccac 
      atgcctccg ggctctgac gaacgtcaa aggggcttt 
      tcgccggca cattcggtc tacacagat taccacaac 
      aagaagtat ctcgaattg gtgcgaaaa tacgccgac 
      ataatcgtc ggtcaattc ttcggccac ctccattcc 
      gacactttc cgcgtcatt tacggcacg agcggtcgc 
      cctgtgtca tgggccctt ctagcgccc tccataacc 
      ccgaaaagg accacagac ggcgccaac aaccccggc 
      ttgaggata tataaattc gacaaagac accggccag 
      gtgctagac tacacccaa tactatctg gacctgtct 
      cgcgctaat tcaaattcc aagggagaa gccgaatgg 
      acggtcgaa tacaacttc agctcctac tacggcatc 
      acggaaata acccccaac tcgctgcac cagctggcc 
      gacaaactg acgtcggtc aaccacaac accttcttc 
      gacaggtac tacaccgcc aacgcggtc aggatgtac 
      agcaacccc cagacgggc tgcgacgcc aactgcgcc 
      cacacccac tactgtgct ataacacgg gtcgattac 
      caagaattc gcgaactgt ctcaaaacg gcggccagt 
      gctctggcc tcctcctcg tcgctaatt cgagcgccg 
      aacttcgga ctgtgcgga ctcgttttc gtgatcagt 
      aaagtgtga
    mRNA sequence
    • >TC031408 RA
      ctttgcgcc gtttccagg atgtaattc cggatggaa 
      tttgtgtaa gacagtggt gctttccgg atcattatt 
      tcttgtaga attgtacga ctatgaaga gtaaaaatg 
      taataatgt ggacggttt gtggggaga acggacgga 
      tattggata cagttattg ctgcatgtt atttctggc 
      acatcacgg acatccatt attacgctc atcacagcg 
      acgccaaga aaggctgct ggcgggcgg attacgacg 
      gaggatcca atgccagga accagagga ggtccatgg 
      ggcagtatg gggactaca gttgtgatg caccatggg 
      agctgatcg agtcagcgg caaaaacca tgatgtcga 
      ggcaaaacg acaacgttg agttcgttt tatggacag 
      gggacgctc tctcgcaca acgcccgaa agttgcacg 
      aaaacgtca agctgcagc tcctccaga acctcaccg 
      acctgctgc ggaagacct tcagctccc agttcgtgt 
      tccccgccc tcgggcacg acgacccca tggccaaga 
      aggagctgg gcaggatgt ggagtcgct ggctgccca 
      ccgactcca tgcacacct tcgccaaag gaggatatt 
      acatgatag agcggaaaa cgctcaagc tgcaaatag 
      tcgtcctaa acacaaacc taatgaaga aaagcgaca 
      acgacgacg aggctgcag aacagtgga aatggctcc 
      acacagtcc tggagaaat ttcagcgaa acggagaaa 
      cggtctacc tcgtcggcc acatgcctc cgggctctg 
      acgaacgtc aaaggggct tttcgccgg cacattcgg 
      tctacacag attaccaca acaagaagt atctcgaat 
      tggtgcgaa aatacgccg acataatcg tcggtcaat 
      tcttcggcc acctccatt ccgacactt tccgcgtca 
      tttacggca cgagcggtc gccctgtgt catgggccc 
      ttctagcgc cctccataa ccccgaaaa ggaccacag 
      acggcgcca acaaccccg gcttgagga tatataaat 
      tcgacaaag acaccggcc aggtgctag actacaccc 
      aatactatc tggacctgt ctcgcgcta attcaaatt 
      ccaagggag aagccgaat ggacggtcg aatacaact 
      tcagctcct actacggca tcacggaaa taaccccca 
      actcgctgc accagctgg ccgacaaac tgacgtcgg 
      tcaaccaca acaccttct tcgacaggt actacaccg 
      ccaacgcgg tcaggatgt acagcaacc cccagacgg 
      gctgcgacg ccaactgcg cccacaccc actactgtg 
      ctataacac gggtcgatt accaagaat tcgcgaact 
      gtctcaaaa cggcggcca gtgctctgg cctcctcct 
      cgtcgctaa ttcgagcgc cgaacttcg gactgtgcg 
      gactcgttt tcgtgatca gtaaagtgt gatagtcct 
      tttgagtga tctggtagg aaattgctc acttgttat 
      gacttaacg ttgaactgg actcaaaat tgacgtctg 
      cgcttaaaa cgaagctgt tcaaacaag tgtttaaat 
      aaaaataat aatttgaaa aatagtagg gtactgcgg 
      gataagttc gggcatggg gcacgtgta acttcaaca 
      agtggcatt gttcgatgg atacattta ttttatgca 
      aaaaatgtg tttgtacaa agcctacta acttagctg 
      agatttcag ttacatttc gactttatg gtgacatca 
      ttaaaaata cctagttta tattaacta gtatgttat 
      gcaaagatt ctcgaatta tcacatcaa atatatttt 
      atggcaagt t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY