Status
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Gene information
General information
TC001443 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_007416.3: 3879356..3882366
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
    TC001443
    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_03190

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC001443 RA
      MNSKAVAAI ATTLLGCGL NNVFLEYII KQDPGCGHL 
      ITFAQFLFI SIHGFVMTS KFGTVTPKI PFQTYLILV 
      VLFFLTSVI NNWAFNFNI PVPLHMIFR AGSLIANMI 
      MGILILKKR YTLEKYVSV AMITLGIII CTLMSSGNK 
      KVEACVDCD IQVEKKEAD DHFFWWIIG IALLTGALL 
      LSARMGIYQ ESIYKHYGK HPQEALYYT HLYSLPGFL 
      IYSPSIWQH MQIASQSEP YEIPIVNTI VPMLWLWIV 
      LNVVTQYLC ISSVYVLTT ECTSLTVTL VITLRKFLS 
      LIFSIVYFQ NPFTIYHWF GTALVFFGT LLFAEVFTK 
      LKQSNAEQK ASKSVKKTS
    CDS sequence
    • >TC001443 RA
      atgaactcc aaggcagtt gcagcgatt gcaaccaca 
      cttttgggc tgtggtttg aataatgtt tttctggaa 
      tacataata aagcaagac ccggggtgt ggccacctc 
      atcaccttt gcccagttt ttatttatt tccattcat 
      gggtttgtt atgacttcg aagtttgga acggtcact 
      ccgaaaatt cccttccaa acttactta atcctagtt 
      gttctgttt ttcctgacg agtgttata aacaactgg 
      gcctttaat ttcaatatt ccggtgccg ctacatatg 
      atttttagg gccggctca cttattgca aacatgatt 
      atgggaatc ttaatattg aaaaagaga tatactctt 
      gagaagtac gtatctgtt gctatgatc actcttggg 
      attattatt tgtacgctg atgtctagt ggtaataag 
      aaagttgag gcttgtgtt gactgtgat attcaagtg 
      gagaagaaa gaggccgat gaccacttt ttctggtgg 
      attatagga attgcgtta ctgactgga gccctctta 
      ttgtcggcc cgtatgggg atttatcag gagtcaatt 
      tataaacat tatgggaag catcctcag gaagcccta 
      tattatact cacttgtat tccctccca ggatttttg 
      atctactcc cccagtatt tggcaacat atgcagatt 
      gcgtcccag tcagaaccg tacgaaatc cccattgtg 
      aacaccata gttcccatg ttatggttg tggattgtt 
      ttgaatgtt gttacgcag tatttatgt atcagttcg 
      gtgtatgtt ttaacgact gagtgcact tcgttgact 
      gttacttta gtgattact ttgaggaag ttcctttct 
      ttgatattt tcaattgtt tatttccaa aatccgttc 
      actatctac cactggttt ggcaccgct ttggtcttc 
      tttgggacg ctgttgttt gccgaagtg ttcactaaa 
      ttgaaacag tccaatgcc gagcaaaag gcaagcaag 
      agtgtgaag aaaactagt taa
    mRNA sequence
    • >TC001443 RA
      aaataaaaa aaatcaata tagtgctca acatcgaaa 
      gtgcattgc atttacgta aaaagcgac cgtttctca 
      cataaaaaa acacagatc tactctagt tcaaaaata 
      ctgtaccca gtttttcgt cagatatgt cacataaaa 
      aagtttcaa tgaaaccac gctccacct ctcgaagaa 
      tattaaatt ccggagaat ttatcgacc agtcagcaa 
      aatgtcgca atctctata catccaaga aagcatgca 
      aaaattttc ggtaataat aataaatcg atttaccac 
      aagttgcgg tgcatgcat gtggtcaag ttatttata 
      tttggaaaa tggattttt tatcaggga tcaatgagt 
      atttttaga taatcgtaa catcaataa attttttga 
      gtcagggta ctgcaaaaa cgctacgga aaaagcaca 
      acacattta aagcacata tatagagta tttttcggt 
      aatactgat aaaaataat aaatcaatt ttttatgag 
      agacaaaac aaaagtgcg tgactaacg gtagtgagc 
      cattagcgg cacgtaatt catctcatc actgggaaa 
      aataaatta tgtaaaaat actcattag agtggtctt 
      tatcgaaaa cacgtcgaa ttagttacc tcaattagg 
      gtctcaaaa tcttgctca ctgattaaa ttgtcttgg 
      tcatggtcg agcaaacaa gagaagaaa tgtgaaaac 
      ttattgttc tgtgttggt gttaattgg caattttcc 
      ttgttgtcg gcttccgac tctatgcta aacctgtcg 
      acccaagtg gctgcaaaa ttgcgagat atttgggga 
      agcgcaact aattaaaaa cccactcca gacgtggac 
      gctccagcc gctgtcgct gtgctcgtc cttctccac 
      attctcgtc gttcttccc cttttcggt ctcaatctc 
      cggcaaagt cctccagcg ctttaacaa atctttcgt 
      cttgtcttt agttctgtc acatgcctg tctccaatt 
      cgctataaa tttatgagg cacttttaa cgaagcatc 
      agtgttttt ttgattgtc atgttcgtg gttttcctc 
      tttgaaatg tattttttc gtttttgac cgaaccact 
      agtgctgct cttatctag gctttttgt acttttgag 
      acttgtctg agacgtacc taagtcttt gatgtggtc 
      tttgttaca tttgccgtc ttcgagcga gttctccat 
      cgtaaagtg cacactttc cgctacgaa ttcaaatta 
      cgcacacca cacataata gcccctaat tttatgcac 
      cataaccta aaagccata acaaaaaat ccatcgatg 
      acgtaagtg ttacgtaag cgccggcgg cgccatctg 
      gcggacacg ccgagctga cgatcacaa cataaccac 
      gaaaataat aatgttaaa ttaatatta ttgttatta 
      tcaatgacg ttttaattg ttacacacg gaaataaat 
      atctcgctg acagtaatg ttgggatga atcaaagca 
      aaatgcaat ttgtggctc atcatcgca ctattaaat 
      tagagtgac ttgccacat ttatcagtg ataataata 
      actacaagt attttttaa aaattactt atgtaatag 
      ttgttagtg ggtcaaaat gaactccaa ggcagttgc 
      agcgattgc aaccacact tttgggctg tggtttgaa 
      taatgtttt tctggaata cataataaa gcaagaccc 
      ggggtgtgg ccacctcat cacctttgc ccagttttt 
      atttatttc cattcatgg gtttgttat gacttcgaa 
      gtttggaac ggtcactcc gaaaattcc cttccaaac 
      ttacttaat cctagttgt tctgttttt cctgacgag 
      tgttataaa caactgggc ctttaattt caatattcc 
      ggtgccgct acatatgat ttttagggc cggctcact 
      tattgcaaa catgattat gggaatctt aatattgaa 
      aaagagata tactcttga gaagtacgt atctgttgc 
      tatgatcac tcttgggat tattatttg tacgctgat 
      gtctagtgg taataagaa agttgaggc ttgtgttga 
      ctgtgatat tcaagtgga gaagaaaga ggccgatga 
      ccacttttt ctggtggat tataggaat tgcgttact 
      gactggagc cctcttatt gtcggcccg tatggggat 
      ttatcagga gtcaattta taaacatta tgggaagca 
      tcctcagga agccctata ttatactca cttgtattc 
      cctcccagg atttttgat ctactcccc cagtatttg 
      gcaacatat gcagattgc gtcccagtc agaaccgta 
      cgaaatccc cattgtgaa caccatagt tcccatgtt 
      atggttgtg gattgtttt gaatgttgt tacgcagta 
      tttatgtat cagttcggt gtatgtttt aacgactga 
      gtgcacttc gttgactgt tactttagt gattacttt 
      gaggaagtt cctttcttt gatattttc aattgttta 
      tttccaaaa tccgttcac tatctacca ctggtttgg 
      caccgcttt ggtcttctt tgggacgct gttgtttgc 
      cgaagtgtt cactaaatt gaaacagtc caatgccga 
      gcaaaaggc aagcaagag tgtgaagaa aactagtta 
      agtattttt gttgttttt cctagtcgt gacaaaaac 
      cagtgtagt ttaaaagtt tattagaaa agtttgaac 
      aataaaaaa ataaaacag ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY