Status
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Gene information
General information
TC032399
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.

TC003507,TC003506
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: 6070640..6082578
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
    TC032399
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09009

    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: 30.0% (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


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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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%
    head capsule mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    maxilla not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    mandible not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    labium not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    labrum potentially not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head structure irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax structure irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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
    • >TC032399 RA
      MVAALLKIE HLISPVKKF SNQKLHGFK TVRLATRPQ 
      GLNEVQESA LSGAGSCGG RARPRVSPS QPPRLRHTP 
      ASQHLLAQR VRLARRLSW SNGQRPPAG REAGRRPPA 
      RAVACRLHR EAPGRTRPG NGHFRPNGR SEGEFNGTT 
      NGTPTPGKG MRAYMCIVC SIPTKAITT LNMRLFITL 
      AIASFGVMG VLSQGGGGG EEEYGHHRE RGTVIGLSR 
      GIEVGRGHY GGGEEERGH EERGGGGGG GGGGGGEVG 
      FGGSHFITP VEVHHEEQI HLKAHPEYH YEYRIRDHK 
      TKDYHQKHE VRDGYKVKG TYSLLEPDH KTVRVVDYT 
      SDKKRGFVA RVSYKPHY
    CDS sequence
    • >TC032399 RA
      atggtggcc gcactatta aaaattgag cacctgatt 
      tcaccagtc aaaaaattt tcaaatcaa aaattacac 
      gggttcaaa acggtccgc ttagcgaca cgtccccag 
      gggctcaac gaggtccag gagagcgcg ctgagcggc 
      gccgggtcc tgcgggggc cgcgcccgc ccccgcgtt 
      tcaccgtca caaccgccc cgtctgcgg cacacgccc 
      gccagtcag catctgtta gcgcaacgc gtaaggctg 
      gcccgaaga ctgtcttgg agcaacggt cagcgcccg 
      ccggcgggc cgggaggcg ggccgccgc cccccggcc 
      cgggcggtg gcatgcagg ctacaccgg gaggcgccg 
      ggccggacc cggcccgga aacggccac ttccggccc 
      aatggccgc tctgagggt gaatttaac ggaactacc 
      aacggaaca ccaacacca gggaaaggc atgcgggct 
      tatatgtgt atcgtttgt tcaataccg accaaagca 
      attacaaca ttaaacatg agattattt attacattg 
      gccatcgca tcctttggg gtgatggga gtgctctcc 
      caaggagga ggaggaggt gaggaagag tacggtcat 
      caccgcgaa cgtggaaca gtgatcgga cttagccga 
      ggaatcgaa gtcggacgt ggccactac ggcggcggc 
      gaagaggag cggggccat gaagagcgc ggaggaggc 
      ggcggtggc ggcggcggc ggcggcggc gaagtcggc 
      tttggcgga tctcacttt atcaccccc gttgaagtg 
      caccacgaa gaacaaatt catcttaaa gcccatccc 
      gaatatcac tacgaatac cgcatccgt gaccacaaa 
      accaaggat tatcaccag aaacatgaa gtgcgtgat 
      ggatacaaa gtaaaggga acctacagt ttgttggaa 
      cctgatcac aagaccgtc cgtgtagtc gactacacc 
      tccgacaag aagcgagga ttcgtcgct agagtgtct 
      tacaaacca cattattaa
    mRNA sequence
    • >TC032399 RA
      acactgtac aaattataa gtaatggtg gccgcacta 
      ttaaaaatt gagcacctg atttcacca gtcaaaaaa 
      ttttcaaat caaaaatta cacgggttc aaaacggtc 
      cgcttagcg acacgtccc caggggctc aacgaggtc 
      caggagagc gcgctgagc ggcgccggg tcctgcggg 
      ggccgcgcc cgcccccgc gtttcaccg tcacaaccg 
      ccccgtctg cggcacacg cccgccagt cagcatctg 
      ttagcgcaa cgcgtaagg ctggcccga agactgtct 
      tggagcaac ggtcagcgc ccgccggcg ggccgggag 
      gcgggccgc cgccccccg gcccgggcg gtggcatgc 
      aggctacac cgggaggcg ccgggccgg acccggccc 
      ggaaacggc cacttccgg cccaatggc cgctctgag 
      ggtgaattt aacggaact accaacgga acaccaaca 
      ccagggaaa ggcatgcgg gcttatatg tgtatcgtt 
      tgttcaata ccgaccaaa gcaattaca acattaaac 
      atgagatta tttattaca ttggccatc gcatccttt 
      ggggtgatg ggagtgctc tcccaagga ggaggagga 
      ggtgaggaa gagtacggt catcaccgc gaacgtgga 
      acagtgatc ggacttagc cgaggaatc gaagtcgga 
      cgtggccac tacggcggc ggcgaagag gagcggggc 
      catgaagag cgcggagga ggcggcggt ggcggcggc 
      ggcggcggc ggcgaagtc ggctttggc ggatctcac 
      tttatcacc cccgttgaa gtgcaccac gaagaacaa 
      attcatctt aaagcccat cccgaatat cactacgaa 
      taccgcatc cgtgaccac aaaaccaag gattatcac 
      cagaaacat gaagtgcgt gatggatac aaagtaaag 
      ggaacctac agtttgttg gaacctgat cacaagacc 
      gtccgtgta gtcgactac acctccgac aagaagcga 
      ggattcgtc gctagagtg tcttacaaa ccacattat 
      taaaattac catctgcca taattttaa atgttaatt 
      attgtctag ttttaaagt cgacttgtt ttgttgcga 
      aataaacta aatagtctt gacgaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY