Status
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Gene information
General information
TC013042 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_007420.3: 14771513..14775415
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
    TC013042
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05377

    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: 50.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


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


    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Pupal morphology
    beetle stock: bad (increased lethality),
    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: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013042 RA
      MRLRFFILL LLQVMCEAD NKTHHHDLQ ISEARYSPW 
      SPWSRCIDC IQRRIKKCI SPKCEDSRI YEEKPCGKK 
      RCKRKARQK KQFRVVQLN EDSSHLLRQ APSRIWSKW 
      SNWSPCSEN CRTQRIRIC RKPGRCRKK QQEQTAYCY 
      HDNSMCENY VLNLLDNQD AYESNRYYH YNNLDRRLP 
      QRRRCGQPF RKSRMLKII GGTESKKYK WPWHVAILN 
      KYYEVFCGG TLIGPRWVL TASHCIRPI LRVRLNEHD 
      LRARDGREL EMTVHTIFQ HPKFNHKTV DNDIALLQL 
      PRSVNLPIA CLPKTRPRP SEVCSVMGW GKVRTSDTY 
      GTHTLHEAK LPIVAASVC RRSYRHFLI TPNMLCAGW 
      SSGEADTCA GDSGGGLMC PFKRRSRLA YSVQGITSF 
      GDGCGLKNK YGIYTTVFN YLKWIYYVM DHYS
    CDS sequence
    • >TC013042 RA
      atgcgcctc cggttcttc attctactt ctgcttcaa 
      gtcatgtgc gaggctgat aataagacc catcatcac 
      gacctccaa atttccgaa gcgcgctac tcgccttgg 
      tccccctgg agccgttgc atcgactgc attcagaga 
      aggatcaag aagtgtatt tcccccaaa tgcgaggat 
      tcccgcatt tacgaagaa aaaccctgc gggaagaaa 
      cgctgcaag aggaaagcg cgccagaaa aaacaattc 
      cgggtcgta caattgaac gaagatagt agccatttg 
      ctgcgtcaa gcgccttct cgcatttgg agcaaatgg 
      tccaactgg tcgccctgt tcggagaat tgcaggacg 
      cagaggatc aggatttgc aggaagccg ggacgctgc 
      aggaagaag cagcaggag cagacggcc tactgctac 
      cacgacaat tccatgtgt gaaaactac gttctgaac 
      ttgttggat aaccaagac gcatacgaa agcaaccgc 
      tactaccac tacaacaac ttggaccgc cgcctcccg 
      cagcgccgc cgctgtggg cagcctttc cgcaaatcg 
      cgaatgctg aaaatcatc ggcggcacc gaatcgaag 
      aagtacaag tggccttgg cacgttgcc attttaaac 
      aaatactac gaagtgttc tgcggaggc actctcata 
      ggcccacgt tgggtcctc acagctagt cattgcata 
      cgtccgatt ttacgcgta agactgaac gaacatgac 
      ctaagggct cgagatgga cgcgagctc gagatgact 
      gttcacacg attttccag catccgaag ttcaaccac 
      aaaacggtg gataatgac attgcccta ctgcaacta 
      ccaaggagt gttaatctc cccatcgct tgcctgccc 
      aagaccagg cccaggccc tcggaggtt tgctccgtc 
      atgggctgg ggcaaggtc aggaccagc gacacctac 
      ggcacccac acgctgcac gaggccaag cttcctatt 
      gtggcggcg agcgtctgc cgccgttcc taccgccac 
      ttcctcatc acccccaac atgttatgt gctggttgg 
      tcgtcaggg gaggccgac acttgcgcc ggggacagt 
      ggcgggggg ctcatgtgc cccttcaaa cggcgttca 
      agactcgca tacagcgtc caaggcatc acaagtttt 
      ggggacggc tgtggtttg aaaaacaag tacggcatt 
      tacaccact gtgtttaac tacctaaag tggatctat 
      tacgtgatg gaccactac tcataa
    mRNA sequence
    • >TC013042 RA
      tgactcgga attagtttg gtttgctcg gtatcgaaa 
      gcagccggc tcttggcca agtcgtgct ttaatacat 
      cacgtcaaa atcacaatg aattacaag gaaaaaaat 
      tccgctctg cctcccgca caataaaca aattttgct 
      tccgtcaag tgaacgtgc ccatattat gaacaccga 
      aagtgagtt gttttaatt taagatgcg cctccggtt 
      cttcattct acttctgct tcaagtcat gtgcgaggc 
      tgataataa gacccatca tcacgacct ccaaatttc 
      cgaagcgcg ctactcgcc ttggtcccc ctggagccg 
      ttgcatcga ctgcattca gagaaggat caagaagtg 
      tatttcccc caaatgcga ggattcccg catttacga 
      agaaaaacc ctgcgggaa gaaacgctg caagaggaa 
      agcgcgcca gaaaaaaca attccgggt cgtacaatt 
      gaacgaaga tagtagcca tttgctgcg tcaagcgcc 
      ttctcgcat ttggagcaa atggtccaa ctggtcgcc 
      ctgttcgga gaattgcag gacgcagag gatcaggat 
      ttgcaggaa gccgggacg ctgcaggaa gaagcagca 
      ggagcagac ggcctactg ctaccacga caattccat 
      gtgtgaaaa ctacgttct gaacttgtt ggataacca 
      agacgcata cgaaagcaa ccgctacta ccactacaa 
      caacttgga ccgccgcct cccgcagcg ccgccgctg 
      tgggcagcc tttccgcaa atcgcgaat gctgaaaat 
      catcggcgg caccgaatc gaagaagta caagtggcc 
      ttggcacgt tgccatttt aaacaaata ctacgaagt 
      gttctgcgg aggcactct cataggccc acgttgggt 
      cctcacagc tagtcattg catacgtcc gattttacg 
      cgtaagact gaacgaaca tgacctaag ggctcgaga 
      tggacgcga gctcgagat gactgttca cacgatttt 
      ccagcatcc gaagttcaa ccacaaaac ggtggataa 
      tgacattgc cctactgca actaccaag gagtgttaa 
      tctccccat cgcttgcct gcccaagac caggcccag 
      gccctcgga ggtttgctc cgtcatggg ctggggcaa 
      ggtcaggac cagcgacac ctacggcac ccacacgct 
      gcacgaggc caagcttcc tattgtggc ggcgagcgt 
      ctgccgccg ttcctaccg ccacttcct catcacccc 
      caacatgtt atgtgctgg ttggtcgtc aggggaggc 
      cgacacttg cgccgggga cagtggcgg ggggctcat 
      gtgcccctt caaacggcg ttcaagact cgcatacag 
      cgtccaagg catcacaag ttttgggga cggctgtgg 
      tttgaaaaa caagtacgg catttacac cactgtgtt 
      taactacct aaagtggat ctattacgt gatggacca 
      ctactcata attcagtat tcgcaaatt taacacttt 
      tatagctat ttttgacat taactgagc aataaactt 
      gatttgtaa aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY