Status
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Gene information
General information
TC000977 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_007417.3: 9101041..9102765
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
    TC000977
    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
    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
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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_03111

    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: -1.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    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
    • >TC000977 RA
      MDGETRSQR SQRSIRSQG EYPADGPRY IQTLTDTET 
      VYESPIDIN ISKTKEIQV PPLTWHHLD LPPKKMKVT 
      NSGYTLILS AKWHQERPY ISGGPLLGN YVFSQLHFH 
      WGKNDGEGS EHTIDGVRY PIEMHVVFF KANYLTQES 
      ALKEKDGIV VLVYMFKGG KNEAFQVLI DHVMEVQKP 
      HTSRKLNPL PLSYFVKKF EQDYLLYWG SVTTTVCLH 
      YILWLISRE PMGVAAEQV DELRSMLDA NEELLQGNF 
      REVQSGRTQ VFHANPSGS KYATLLALP
    CDS sequence
    • >TC000977 RA
      atggacggt gagacccga agccagcgt agccaacgg 
      agcatacgc agccaaggg gaatatcct gccgatggg 
      ccccgctat atccaaaca ctcaccgac actgaaacc 
      gtctacgaa tcaccgatt gacataaac atcagcaaa 
      acgaaggag atccaggtg ccccccttg acgtggcac 
      cacctggac ttgcccccc aaaaaaatg aaagtcact 
      aattcgggc tacacttta attttgagc gcgaaatgg 
      caccaggag cggccctac atatctgga gggcccctc 
      cttggtaat tacgtcttc tcccaattg catttccat 
      tggggaaag aacgatgga gaagggagc gaacatacc 
      atagatggg gtccgctac cccattgaa atgcacgtg 
      gtcttcttc aaagccaat tatctgact caagaatcg 
      gctttgaag gagaaagac gggattgtg gtgcttgtc 
      tacatgttc aaaggtggt aaaaacgag gcgtttcaa 
      gtcttgatc gaccatgtt atggaggtc caaaagccg 
      cacacttcg cggaaactg aaccctttg cctttgagt 
      tactttgtg aagaagttt gagcaggat tatttgttg 
      tattggggt tctgtgacc acaactgtg tgtcttcac 
      tatattttg tggttgatt tcacgggag ccgatgggg 
      gttgcagct gaacaagtt gacgaactg cgctcgatg 
      ctggacgcc aatgaagag cttttgcaa gggaatttt 
      cgggaggtt cagtcgggg aggacccag gtttttcac 
      gcgaatccg tccgggtcc aagtatgca acactgctt 
      gctctgcca taa
    mRNA sequence
    • >TC000977 RA
      acggacaac aggggtgtt tccggggga gggcaaaag 
      ggaggtgcc aaaagtcgg gctttcccc ggtatttgt 
      cgaattccg tcgggattt ttgcgctgt cgagggctt 
      gtttttcct cgttgatgc tgcggagac cttcggagt 
      agttcacga ggaggtttc cgggctcgc ggtgtaatt 
      tccgggcga tgtttgcct ggacttttc gccattctt 
      gcgtccaag ttgaccaat ttttgagcg gattttcga 
      ttttgtcac aattttcgt ggtcgcctg acattttaa 
      tttccagtg tcaggggag tgtcagtaa atttcttgt 
      gctaaatca atggacggt gagacccga agccagcgt 
      agccaacgg agcatacgc agccaaggg gaatatcct 
      gccgatggg ccccgctat atccaaaca ctcaccgac 
      actgaaacc gtctacgaa tcaccgatt gacataaac 
      atcagcaaa acgaaggag atccaggtg ccccccttg 
      acgtggcac cacctggac ttgcccccc aaaaaaatg 
      aaagtcact aattcgggc tacacttta attttgagc 
      gcgaaatgg caccaggag cggccctac atatctgga 
      gggcccctc cttggtaat tacgtcttc tcccaattg 
      catttccat tggggaaag aacgatgga gaagggagc 
      gaacatacc atagatggg gtccgctac cccattgaa 
      atgcacgtg gtcttcttc aaagccaat tatctgact 
      caagaatcg gctttgaag gagaaagac gggattgtg 
      gtgcttgtc tacatgttc aaaggtggt aaaaacgag 
      gcgtttcaa gtcttgatc gaccatgtt atggaggtc 
      caaaagccg cacacttcg cggaaactg aaccctttg 
      cctttgagt tactttgtg aagaagttt gagcaggat 
      tatttgttg tattggggt tctgtgacc acaactgtg 
      tgtcttcac tatattttg tggttgatt tcacgggag 
      ccgatgggg gttgcagct gaacaagtt gacgaactg 
      cgctcgatg ctggacgcc aatgaagag cttttgcaa 
      gggaatttt cgggaggtt cagtcgggg aggacccag 
      gtttttcac gcgaatccg tccgggtcc aagtatgca 
      acactgctt gctctgcca taatcaaat agttttcgt 
      tcggtattc ttctttatt cagacatgt gtaaatttt 
      ctaatgaag ttctagtat atacatatt gcattatac 
      aacttttgt acataaata aagattaca ttagtcagg 
      tagtgcttt ttcatacaa attatgcta cagtgattg 
      tcacttccc tagaattcc ttttgttca aaactgcaa 
      caaaattaa tattgcatt tacttagtg gtggtgcag 
      aaccaaata aatccaaca tcaaacttt tattgtcct 
      agattctct tgtttaatt acaaaaaat gaattattc 
      acatcattt ccgcaaatt aaaaatata tatacaaaa 
      acagtaaat aaacaacaa tagactta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY