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Gene information
General information
TC009780 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_007422.5: 8075102..8076666
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
    TC009780
    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_04696

    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)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: 2 - Number of animals showing the phenotype: 2
    ovary without detectable defects - Number of animals showing the phenotype: 1
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009780 RA
      MADVVNIIV AQATENVKE NATNTTGKP PSTPEGMAM 
      AYGSIVVMA LLPIFFGSY RSVNYHKEN KPEKMTKKD 
      AAIFPIMAS CALVGLYVV FKLFSKEYI NLLLTGYFF 
      FLGVLALTH LLSPVVSKL VPAAIPNIP FHITFKQGE 
      GESAQYLID YRFSTYDVV SLAACSLVG AWYLVQKHW 
      IANNLFGLA FAVNAVELL HLNNVITGC ILLCGLFFY 
      DIFWVFGTD VMVTVAKSF EAPIKLVFP QDLLQNGLA 
      ANNFAMLGL GDIVIPGIF IALLLRFDN SLKRQTKTY 
      FHAACLAYF LGLMATIFV MHVFKHAQP ALLYLVPAC 
      VGTPLLLAL VKGDLTALF KYEDSPDEK VEEKKKDEK 
      TSKPETKKV K
    CDS sequence
    • >TC009780 RA
      atggcagac gttgtcaat ataatcgtg gcacaagct 
      accgaaaat gtgaaagaa aatgcaaca aataccacg 
      gggaagccc cctagcacc cccgaaggc atggccatg 
      gcgtatggc agcatcgtc gtcatggcc cttttgcca 
      attttcttc gggtcgtac cgatctgtc aactaccat 
      aaggaaaac aaaccagag aaaatgacc aagaaggat 
      gccgccatc ttccccata atggcatca tgtgccctg 
      gtcgggctg tatgtagtc ttcaaactg ttttccaaa 
      gagtacatc aacttgcta ctgactgga tatttcttt 
      ttcctcggg gtgttggcc ctcacacac ttgctgagt 
      cctgtagtg agtaagctt gtgcctgcc gcgattcct 
      aatattccc ttccacatc accttcaag caaggagaa 
      ggcgaatct gctcaatat ttgattgat tatcggttt 
      tccacttat gacgtagtg tccctggct gcgtgttct 
      ctagtcggc gcttggtac ttagtccag aaacactgg 
      atcgccaat aatttgttt ggattagct ttcgctgtc 
      aacgctgtt gagctcctc cacctcaac aatgtcatc 
      actggatgc atcctcctg tgtggactc ttcttctac 
      gatatcttc tgggtgttt gggactgac gttatggtc 
      actgttgcc aaaagcttt gaagccccc atcaaattg 
      gtgttcccg caagacttg ctccagaac ggacttgct 
      gctaacaat tttgccatg ctagggtta ggagacatt 
      gtgattcca ggcattttt attgccctg cttttgaga 
      tttgacaac agcctcaag agacagacc aaaacgtac 
      ttccatgct gcttgccta gcctacttc cttggtcta 
      atggctacc atttttgta atgcatgtc tttaaacat 
      gcacaacct gctttgtta tatttggta cctgcctgc 
      gtgggaaca cctttactt ctcgcatta gttaaaggc 
      gacttgact gcactattt aagtatgag gattctcct 
      gatgaaaaa gtggaagag aagaagaaa gatgaaaaa 
      acgtcgaaa ccagaaacc aaaaaagta aaataa
    mRNA sequence
    • >TC009780 RA
      tttcctgct aaaacatcc ttgaagcta acttcactc 
      gtatacgtc actgttcaa cgtcaatac ttggcctaa 
      cttcactca gtctttttc aaaccatgg cagacgttg 
      tcaatataa tcgtggcac aagctaccg aaaatgtga 
      aagaaaatg caacaaata ccacgggga agcccccta 
      gcacccccg aaggcatgg ccatggcgt atggcagca 
      tcgtcgtca tggcccttt tgccaattt tcttcgggt 
      cgtaccgat ctgtcaact accataagg aaaacaaac 
      cagagaaaa tgaccaaga aggatgccg ccatcttcc 
      ccataatgg catcatgtg ccctggtcg ggctgtatg 
      tagtcttca aactgtttt ccaaagagt acatcaact 
      tgctactga ctggatatt tctttttcc tcggggtgt 
      tggccctca cacacttgc tgagtcctg tagtgagta 
      agcttgtgc ctgccgcga ttcctaata ttcccttcc 
      acatcacct tcaagcaag gagaaggcg aatctgctc 
      aatatttga ttgattatc ggttttcca cttatgacg 
      tagtgtccc tggctgcgt gttctctag tcggcgctt 
      ggtacttag tccagaaac actggatcg ccaataatt 
      tgtttggat tagctttcg ctgtcaacg ctgttgagc 
      tcctccacc tcaacaatg tcatcactg gatgcatcc 
      tcctgtgtg gactcttct tctacgata tcttctggg 
      tgtttggga ctgacgtta tggtcactg ttgccaaaa 
      gctttgaag cccccatca aattggtgt tcccgcaag 
      acttgctcc agaacggac ttgctgcta acaattttg 
      ccatgctag ggttaggag acattgtga ttccaggca 
      tttttattg ccctgcttt tgagatttg acaacagcc 
      tcaagagac agaccaaaa cgtacttcc atgctgctt 
      gcctagcct acttccttg gtctaatgg ctaccattt 
      ttgtaatgc atgtcttta aacatgcac aacctgctt 
      tgttatatt tggtacctg cctgcgtgg gaacacctt 
      tacttctcg cattagtta aaggcgact tgactgcac 
      tatttaagt atgaggatt ctcctgatg aaaaagtgg 
      aagagaaga agaaagatg aaaaaacgt cgaaaccag 
      aaaccaaaa aagtaaaat aatttttta aaacaattt 
      cattggaat tatataaat tgtttcgtc tgaacgttt 
      aagtgaatt ctatttatt atataattc aatttttat 
      attccatcc ttaaagttt gttaagtac tgttatttt 
      taaaaactg aatattttc tattaaaag tattgagaa 
      ttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY