Status
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Gene information
General information
TC003432 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: 5134987..5138708
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
    TC003432
    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_07392

    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: 40.0% (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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): 50% - 80%
    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
    • >TC003432 RA
      MEMMKLSGI LVTVTHLLA LSLNHYIGI LKPLHYNSI 
      VTRRKVTAV TILLWLFPT AFVIFLFTS QAEGAYWRD 
      IFSNETEID MENQTTFVD TFRFRMSYS AYFIVSIFL 
      MAICYTHIL IIVKKQQNI WKNLSRVGS TKWSGRSVK 
      HCPNKANKE QKQLEGNIR AIYTTLLIL GSCVIGWMP 
      ALLIFVLMC KEDCYIHGA QLRSLNENY LIEVMSMRL 
      LENMLIVLK MLANPIIYS IRMKEIQEG TKHMQATLL 
      KVFCPSRPD SNNYTLASR RSPNAYNCS LRTRLTTAS 
      INNGGHTSH VSIGRTELV NTLL
    CDS sequence
    • >TC003432 RA
      atggaaatg atgaaactg agcggaatt ctcgtcacg 
      gtaactcat ttactggcc ctcagcttg aaccactac 
      atcggaatt ttaaaaccc ctgcactac aactcgatc 
      gtaacaaga cgcaaagtt acagcagta acaatatta 
      ctctggctg ttcccaaca gctttcgtc attttccta 
      ttcacgtct caggccgaa ggcgcctac tggagagat 
      atcttcagc aacgaaacg gaaatagat atggaaaac 
      cagacgaca tttgttgac acgttcaga ttcagaatg 
      agttattcc gcctatttc atcgtctcc atattcctc 
      atggcgatt tgctacacg cacatttta atcatcgtg 
      aaaaagcag caaaacata tggaaaaac ttatcaagg 
      gtcgggagc accaaatgg tcaggacgc tccgtcaaa 
      cattgcccg aacaaagca aacaaagag caaaaacaa 
      ttggaaggc aacatccga gcaatatac acaacgttg 
      ctcatcctc ggatcgtgt gtgattggc tggatgcct 
      gcacttctc atttttgtg ctaatgtgc aaagaagac 
      tgctacata catggcgca cagctcagg agcttgaac 
      gaaaactat ctcatcgaa gtcatgtcc atgagactg 
      ctcgaaaac atgctcatt gtgctcaaa atgctcgcc 
      aatcccatc atatacagc atcagaatg aaggagatt 
      caggaagga accaagcac atgcaggcg accctgttg 
      aaggttttt tgcccatct aggcctgac agcaacaat 
      tacaccctc gcttctcgc cgatcgcca aatgcatac 
      aactgttca ttacgcaca cgattaacg acggcctca 
      ataaataac ggtggacac acaagccac gttagcatc 
      ggacggacc gaattggtc aacacactt ttgtaa
    mRNA sequence
    • >TC003432 RA
      gatggctgg aaataatta tggaaatga tgaaactga 
      gcggaattc tcgtcacgg taactcatt tactggccc 
      tcagcttga accactaca tcggaattt taaaacccc 
      tgcactaca actcgatcg taacaagac gcaaagtta 
      cagcagtaa caatattac tctggctgt tcccaacag 
      ctttcgtca ttttcctat tcacgtctc aggccgaag 
      gcgcctact ggagagata tcttcagca acgaaacgg 
      aaatagata tggaaaacc agacgacat ttgttgaca 
      cgttcagat tcagaatga gttattccg cctatttca 
      tcgtctcca tattcctca tggcgattt gctacacgc 
      acattttaa tcatcgtga aaaagcagc aaaacatat 
      ggaaaaact tatcaaggg tcgggagca ccaaatggt 
      caggacgct ccgtcaaac attgcccga acaaagcaa 
      acaaagagc aaaaacaat tggaaggca acatccgag 
      caatataca caacgttgc tcatcctcg gatcgtgtg 
      tgattggct ggatgcctg cacttctca tttttgtgc 
      taatgtgca aagaagact gctacatac atggcgcac 
      agctcagga gcttgaacg aaaactatc tcatcgaag 
      tcatgtcca tgagactgc tcgaaaaca tgctcattg 
      tgctcaaaa tgctcgcca atcccatca tatacagca 
      tcagaatga aggagattc aggaaggaa ccaagcaca 
      tgcaggcga ccctgttga aggtttttt gcccatcta 
      ggcctgaca gcaacaatt acaccctcg cttctcgcc 
      gatcgccaa atgcataca actgttcat tacgcacac 
      gattaacga cggcctcaa taaataacg gtggacaca 
      caagccacg ttagcatcg gacggaccg aattggtca 
      acacacttt tgtaaaatc atacacttt aattacaaa 
      atatacatt gaggtaacg a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY