Status
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Gene information
General information
TC001165 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_007417.3: 12172697..12174819
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
    TC001165
    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_06807

    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: 60.0% (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: 4 (9 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
    • >TC001165 RA
      MGTEKLHEY EGFVGRLHT LRDHVKDRW NTWKDENPG 
      VFQRHEKTP PGVVYEDYS HIYRRKTRT ELIRISAAV 
      MGIEFSYSA ETAFVSPTL LKIGVEHKH MTLVWALSP 
      LIGFFLTPI LGSLSDRCH LNAGRRRPF IFVMSVGVL 
      LGLLLVPNG ELLGYVAGD PKPSDSHYN NSHPWGVFF 
      TVLGTVLLD FDADACQSP ARAYLLDVT VPEDHARGL 
      STFTVMAGL GGFLGYALG GINWDATLI GRLLGGHVR 
      AVFTLTTLI FIVCVSYTI TSFKEMPLR LLELRGTLD 
      ESDEIRTTG PSYGSLEVD EEQENSSQY VSINGEQPQ 
      SRKSIVPAP NASLLIYLK SIVYMPKSL KILCLTNLF 
      CWMAHVCYS LYFTDFVGE AVFGGNPTG PDSDPGREL 
      YESGVRFGC WGMSMYSLS CACYSLIIE RLIKNFGAR 
      KVYVGGLLV YSSGMFLMA LTKHKVGVI VFSWTAGVM 
      YSTLFTMPY LLVAHYHAS GTFERVEDG KEVAQQIRG 
      LGTDVAIVS SMVFLAQFI LSVCMGYIV NAVGTTTAV 
      VVVASSLAF CGAITATQV VYLDL
    CDS sequence
    • >TC001165 RA
      atgggcacg gaaaaactg cacgagtac gagggtttc 
      gtgggccga ctgcacacc ctcagagac cacgtcaag 
      gacaggtgg aacacctgg aaggacgaa aatccagga 
      gtgttccaa agacatgaa aaaacaccg cctggagtc 
      gtctacgag gactattcg catatctac aggcgcaaa 
      acccggacc gaattgata cgtatttca gcagctgta 
      atggggatt gaattctcg tattcagcg gaaactgct 
      ttcgtttcg cccacttta ttgaaaatc ggcgttgag 
      cacaaacat atgacccta gtctgggcg ctatctccc 
      cttattgga ttcttccta actccgatt ttagggtca 
      ttgagtgat cggtgccat ttaaatgcc gggcgtaga 
      agaccgttt attttcgtc atgtctgtt ggggttctc 
      ctggggctt ttgctagtc cctaatgga gagttgctg 
      gggtacgtg gcaggcgac cccaaaccc tcagactct 
      cactacaac aactcgcac ccttggggg gtgtttttc 
      acggttttg gggacggtt ttactcgat tttgatgca 
      gatgcgtgc caaagccca gcaagggcg tatttattg 
      gacgttacc gttcctgag gaccatgcc cgtggcttg 
      agcactttt accgtcatg gcgggacta ggggggttc 
      ctgggttat gccctagga ggcataaac tgggacgcg 
      acccttata gggagatta ctaggaggt catgtgcgg 
      gccgttttc accctaact accctaatt ttcatcgtt 
      tgtgtctcc tacactatc acaagtttt aaggaaatg 
      cctttgaga ctcctggaa ttgcgagga accttagac 
      gagtcagac gaaattagg acaacaggg cccagttat 
      ggcagcctg gaagtggac gaggaacaa gaaaattca 
      agccagtac gtttcaatt aacggggaa cagccccaa 
      tcgcggaaa agcatagtc ccggcccct aacgcctcc 
      ttactgatt tacctcaaa agtatagtc tatatgcca 
      aagtcgttg aaaatatta tgtctgacg aatcttttc 
      tgctggatg gcgcacgtg tgctactcc ctgtatttc 
      acggacttc gtaggcgag gccgttttc ggaggaaat 
      ccaacagga cctgacagt gaccctggc cgagagctg 
      tacgaaagt ggggtcagg tttggttgt tggggcatg 
      tcaatgtat tcgttatca tgcgcttgc tactctttg 
      ataatcgag aggttgatt aaaaatttc ggggccagg 
      aaggtctac gtcgggggg cttttggtc tattcgagc 
      ggaatgttt ctaatggct ttgaccaaa cacaaagtt 
      ggggttatt gtatttagc tggactgct ggtgtcatg 
      tattcgact cttttcacc atgccgtac ctcctagtc 
      gcccattac cacgctagc ggaacgttt gagagagtt 
      gaggacggc aaggaagtc gctcaacag atccgaggc 
      ctcggaacc gacgttgca atagtctca agtatggtg 
      ttcctcgct cagtttatc ttatcagtg tgcatgggt 
      tacatcgtc aatgccgtg ggcacgacc accgctgtg 
      gtggtcgtc gccagcagc ttggcgttc tgtggcgct 
      atcactgca acccaagtc gtctatttg gacctttga
    mRNA sequence
    • >TC001165 RA
      tgtttgcta aagggtgaa tccatcaag tggccgaaa 
      catgtgaaa aatgggcac ggaaaaact gcacgagta 
      cgagggttt cgtgggccg actgcacac cctcagaga 
      ccacgtcaa ggacaggtg gaacacctg gaaggacga 
      aaatccagg agtgttcca aagacatga aaaaacacc 
      gcctggagt cgtctacga ggactattc gcatatcta 
      caggcgcaa aacccggac cgaattgat acgtatttc 
      agcagctgt aatggggat tgaattctc gtattcagc 
      ggaaactgc tttcgtttc gcccacttt attgaaaat 
      cggcgttga gcacaaaca tatgaccct agtctgggc 
      gctatctcc ccttattgg attcttcct aactccgat 
      tttagggtc attgagtga tcggtgcca tttaaatgc 
      cgggcgtag aagaccgtt tattttcgt catgtctgt 
      tggggttct cctggggct tttgctagt ccctaatgg 
      agagttgct ggggtacgt ggcaggcga ccccaaacc 
      ctcagactc tcactacaa caactcgca cccttgggg 
      ggtgttttt cacggtttt ggggacggt tttactcga 
      ttttgatgc agatgcgtg ccaaagccc agcaagggc 
      gtatttatt ggacgttac cgttcctga ggaccatgc 
      ccgtggctt gagcacttt taccgtcat ggcgggact 
      aggggggtt cctgggtta tgccctagg aggcataaa 
      ctgggacgc gacccttat agggagatt actaggagg 
      tcatgtgcg ggccgtttt caccctaac taccctaat 
      tttcatcgt ttgtgtctc ctacactat cacaagttt 
      taaggaaat gcctttgag actcctgga attgcgagg 
      aaccttaga cgagtcaga cgaaattag gacaacagg 
      gcccagtta tggcagcct ggaagtgga cgaggaaca 
      agaaaattc aagccagta cgtttcaat taacgggga 
      acagcccca atcgcggaa aagcatagt cccggcccc 
      taacgcctc cttactgat ttacctcaa aagtatagt 
      ctatatgcc aaagtcgtt gaaaatatt atgtctgac 
      gaatctttt ctgctggat ggcgcacgt gtgctactc 
      cctgtattt cacggactt cgtaggcga ggccgtttt 
      cggaggaaa tccaacagg acctgacag tgaccctgg 
      ccgagagct gtacgaaag tggggtcag gtttggttg 
      ttggggcat gtcaatgta ttcgttatc atgcgcttg 
      ctactcttt gataatcga gaggttgat taaaaattt 
      cggggccag gaaggtcta cgtcggggg gcttttggt 
      ctattcgag cggaatgtt tctaatggc tttgaccaa 
      acacaaagt tggggttat tgtatttag ctggactgc 
      tggtgtcat gtattcgac tcttttcac catgccgta 
      cctcctagt cgcccatta ccacgctag cggaacgtt 
      tgagagagt tgaggacgg caaggaagt cgctcaaca 
      gatccgagg cctcggaac cgacgttgc aatagtctc 
      aagtatggt gttcctcgc tcagtttat cttatcagt 
      gtgcatggg ttacatcgt caatgccgt gggcacgac 
      caccgctgt ggtggtcgt cgccagcag cttggcgtt 
      ctgtggcgc tatcactgc aacccaagt cgtctattt 
      ggacctttg agctatttt taataaatg catgattgt 
      gtcctcgcc acattttgg caaatattc gtgttttga 
      tgtgtccaa tagacgtga ctttgaaac ggcaaataa 
      aatatgaat gttgta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY