Status
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Gene information
General information
TC003836 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: 22626769..22628523
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
    TC003836
    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_07048

    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: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 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
    • >TC003836 RA
      MGNICCCKT RLKRKIVLL LVGLDNAGK TVAAKGLAG 
      ESVDSVVPT VGFSVVNLS YHNYIVKVF DLGGGPNIR 
      GIWHKYFVD AHGVIFVVD SSDISRLDE AKDVLRELL 
      SHEKIARKP VLVLANKQD NENALDEVD IIEKLDLEQ 
      IVNGNECPT LVESCSAVE TPGNLRIDP GIKKGYEWL 
      LSYIVRNYE ILNKRVEED VMQQIALEN RLRTEKIEK 
      IRALKEAEL KRKQQDEDA IESYSNYER KMNGQLQEE 
      AQSESDVSE TSSDSFPPV YHVKEDILL ERPKSAVQI 
      IRQQLELNA PSKKSFISR ASNKTAPLH LYGVQVPRS 
      ASAERKIFD VQRRHLKSA GDAPFRLTE LPNVPMTSG 
      DEFHNEIYD LMNFDTTSN KIVGDVHKD KTNGWFHKT 
      KNGDINGIS VVNVDL
    CDS sequence
    • >TC003836 RA
      atgggcaat atatgctgt tgtaaaaca cggttaaaa 
      aggaaaatc gtcttgttg ttagtggga ctggataac 
      gctggaaaa actgttgct gcgaaaggc ttggcgggt 
      gaatcggtc gattcagtg gtcccgact gtcggcttc 
      tctgttgtt aatttaagc taccacaat tacatcgtc 
      aaagtgttt gatttaggg ggaggccca aacattcgc 
      ggaatctgg cacaaatat ttcgttgat gcacacggt 
      gtgattttc gtggtcgat tcgagcgat atttcacgc 
      cttgatgag gcaaaagac gtgctaagg gaactccta 
      tcgcacgag aaaattgca cgaaagcca gtcctagtt 
      ttagccaat aaacaagac aacgaaaat gccttagac 
      gaggtcgat attatcgaa aaactggac ttggagcaa 
      atcgtaaac gggaatgag tgtcccact ttggtggag 
      agttgttcg gcggtggaa acaccaggg aatttgcgg 
      atcgatccc gggattaaa aagggatac gaatggttg 
      ttgagttac attgttagg aactacgag attttaaat 
      aagcgagtt gaggaggac gttatgcag caaatcgcg 
      ctggaaaac cggttaaga actgaaaaa atcgagaaa 
      atccgggcg ttgaaagaa gccgagttg aagcgaaag 
      caacaggat gaagacgcg attgaatcc tactcgaat 
      tacgagcgg aaaatgaac ggacaattg caggaagaa 
      gcacaaagt gagagtgat gtgagcgag acttcgtcc 
      gattctttc cctccagtt taccacgtc aaggaagat 
      attttacta gagcggcct aaatcagcc gttcagatc 
      ataaggcag cagttggag ttgaatgcg cctagtaaa 
      aagtcgttc atttcgcgg gcctcgaac aagacagcc 
      cccttgcac ctgtacggt gtccaagtg cctcggtcg 
      gcgtctgca gagaggaaa atcttcgat gtgcagcga 
      cggcactta aaatcggcc ggtgatgcg cctttcaga 
      ctcaccgaa ttacctaat gtgcctatg acaagtggt 
      gatgagttt cataacgaa atttacgat ttgatgaat 
      tttgataca accagcaat aaaatagtt ggtgatgtt 
      cataaggat aagacaaac gggtggttt cacaaaacc 
      aagaatggt gatataaac ggaataagc gttgtcaat 
      gtagatttg tag
    mRNA sequence
    • >TC003836 RA
      tgattaatg aaaaataaa acacccata tttctttaa 
      tatacgtgc ttggggcga ttgttggcc ccgcatggt 
      gacttttat tgttgtgct gttggtgcc cccatttgc 
      caatctttt gtttacaaa tggcagcat aaatgtcaa 
      acttgtgat ttaaatgca tttaaaata aaaatgatt 
      ttctcacgt agatatggg caatatatg ctgttgtaa 
      aacacggtt aaaaaggaa aatcgtctt gttgttagt 
      gggactgga taacgctgg aaaaactgt tgctgcgaa 
      aggcttggc gggtgaatc ggtcgattc agtggtccc 
      gactgtcgg cttctctgt tgttaattt aagctacca 
      caattacat cgtcaaagt gtttgattt agggggagg 
      cccaaacat tcgcggaat ctggcacaa atatttcgt 
      tgatgcaca cggtgtgat tttcgtggt cgattcgag 
      cgatatttc acgccttga tgaggcaaa agacgtgct 
      aagggaact cctatcgca cgagaaaat tgcacgaaa 
      gccagtcct agttttagc caataaaca agacaacga 
      aaatgcctt agacgaggt cgatattat cgaaaaact 
      ggacttgga gcaaatcgt aaacgggaa tgagtgtcc 
      cactttggt ggagagttg ttcggcggt ggaaacacc 
      agggaattt gcggatcga tcccgggat taaaaaggg 
      atacgaatg gttgttgag ttacattgt taggaacta 
      cgagatttt aaataagcg agttgagga ggacgttat 
      gcagcaaat cgcgctgga aaaccggtt aagaactga 
      aaaaatcga gaaaatccg ggcgttgaa agaagccga 
      gttgaagcg aaagcaaca ggatgaaga cgcgattga 
      atcctactc gaattacga gcggaaaat gaacggaca 
      attgcagga agaagcaca aagtgagag tgatgtgag 
      cgagacttc gtccgattc tttccctcc agtttacca 
      cgtcaagga agatatttt actagagcg gcctaaatc 
      agccgttca gatcataag gcagcagtt ggagttgaa 
      tgcgcctag taaaaagtc gttcatttc gcgggcctc 
      gaacaagac agccccctt gcacctgta cggtgtcca 
      agtgcctcg gtcggcgtc tgcagagag gaaaatctt 
      cgatgtgca gcgacggca cttaaaatc ggccggtga 
      tgcgccttt cagactcac cgaattacc taatgtgcc 
      tatgacaag tggtgatga gtttcataa cgaaattta 
      cgatttgat gaattttga tacaaccag caataaaat 
      agttggtga tgttcataa ggataagac aaacgggtg 
      gtttcacaa aaccaagaa tggtgatat aaacggaat 
      aagcgttgt caatgtaga tttgtagtt ttagcacaa 
      ttgtctagt cgtaagctt ttagtctat ttttatatg 
      cactaagca cgtatttat atttgataa gagacaaga 
      attgtattt acaaaaggg acaaccttt aattcatag 
      atttacgga aattgttat ttattcaac cgagcggaa 
      aaataaagt actgtttct aga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY