Status
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Gene information
General information
TC011338 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_007425.3: 3878433..3880939
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
    TC011338
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09568

    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 (11 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
    • >TC011338 RA
      MFKFLVWHV LLLGVSCEL FDHELGYRV EYAPTYDNY 
      KPRDYHFSY AVSDPHTGD HKSQWEVKE NGVVRGAYS 
      LLEPDGTTR VVEYVADHD GFRAVVKKI GTAIHPEPV 
      IAVPQPIVP EVAHFRSYD GQIYNYANS APLVLQNVH 
      HEVPARSFV QVHHPPEVQ HEVRVPEVP QHEIRVEAV 
      PLPHHEIKV PEITQHEVR PLLHVPIGQ EYGKIEAVP 
      LPQHEIKVP EITQHEIRP ALYEYGKVE AIPLPQHEI 
      RVPEVPQHQ ITRLIQVPS ITQHYAPQH ALRTIEQYA 
      LPLPYHEVR VPEVPLVHQ EVERQHIRV PEVSQVHQE 
      IEQQYIRVP EVPRNEIAH GQVPLEPVG PSYKTTIIY 
      GLTGNPEDD SRYSQPQEK YHASYSEKV PNVVPPPQP 
      SKAHSDHKR ESAPKEQFL IVFPDRSN
    CDS sequence
    • >TC011338 RA
      atgttcaag tttttggta tggcacgtg ctgctactt 
      ggcgtttct tgcgaactc ttcgaccac gaactcggc 
      taccgtgtc gaatatgca ccgacgtac gacaattac 
      aaaccgcga gactatcac tttagctat gccgtttcg 
      gaccctcac acaggggac cataaatcc caatgggaa 
      gtcaaggaa aatggggtg gtacgtggt gcctacagc 
      ctactagaa ccagatggt accaccaga gttgtagag 
      tatgtggcg gaccatgat gggttcaga gcagtagtc 
      aagaaaata ggcaccgcc attcaccca gaacccgtc 
      atcgcagta ccacaacct atagtacca gaagtagca 
      catttccgc agttacgat gggcaaatt tacaactac 
      gccaactcg gcgcctctt gtattacaa aatgtacac 
      cacgaagta ccagcacgt agcttcgtc caggtgcac 
      catcctcct gaagtccaa cacgaagtc agagtacca 
      gaagttcct caacatgaa attcgagtc gaagcagta 
      ccactaccc catcatgaa atcaaagta ccggaaata 
      acgcaacat gaggtcaga cctcttctt cacgtacca 
      attggtcaa gaatatgga aaaattgag gcagtacct 
      ttacctcaa cacgaaatc aaagtaccc gaaataacg 
      caacacgaa atcagaccc gccctttat gagtatgga 
      aaagttgag gccataccc ctaccccaa cacgaaatc 
      agggtacca gaagtacca caacaccaa atcactcgc 
      cttattcag gtaccatcc ataacccaa cactatgcg 
      ccccaacat gcgttacga accattgaa caatacgct 
      ttgccattg ccctaccat gaggtaagg gtaccagaa 
      gtaccgcta gtacaccag gaagtagag cgacaacat 
      ataagagta ccggaagta tcacaagtg caccaggaa 
      atagaacaa caatatata agagtaccg gaagtacca 
      cgaaacgaa atagcccat gggcaagta ccactggaa 
      ccagtgggc cctagctac aaaactacc atcatttat 
      ggtttaacc ggaaatccg gaagacgac tctcgctac 
      tcgcaacca caggaaaag taccatgct tcgtattcc 
      gaaaaggta ccaaatgtg gtaccacca ccacaacca 
      tccaaggca cactctgac cacaagcgc gaaagcgcc 
      cccaaagaa caattttta atcgttttt cctgatcgc 
      tccaattaa
    mRNA sequence
    • >TC011338 RA
      ccatatttg taatagtac cgataaaac aatgttcaa 
      gtttttggt atggcacgt gctgctact tggcgtttc 
      ttgcgaact cttcgacca cgaactcgg ctaccgtgt 
      cgaatatgc accgacgta cgacaatta caaaccgcg 
      agactatca ctttagcta tgccgtttc ggaccctca 
      cacagggga ccataaatc ccaatggga agtcaagga 
      aaatggggt ggtacgtgg tgcctacag cctactaga 
      accagatgg taccaccag agttgtaga gtatgtggc 
      ggaccatga tgggttcag agcagtagt caagaaaat 
      aggcaccgc cattcaccc agaacccgt catcgcagt 
      accacaacc tatagtacc agaagtagc acatttccg 
      cagttacga tgggcaaat ttacaacta cgccaactc 
      ggcgcctct tgtattaca aaatgtaca ccacgaagt 
      accagcacg tagcttcgt ccaggtgca ccatcctcc 
      tgaagtcca acacgaagt cagagtacc agaagttcc 
      tcaacatga aattcgagt cgaagcagt accactacc 
      ccatcatga aatcaaagt accggaaat aacgcaaca 
      tgaggtcag acctcttct tcacgtacc aattggtca 
      agaatatgg aaaaattga ggcagtacc tttacctca 
      acacgaaat caaagtacc cgaaataac gcaacacga 
      aatcagacc cgcccttta tgagtatgg aaaagttga 
      ggccatacc cctacccca acacgaaat cagggtacc 
      agaagtacc acaacacca aatcactcg ccttattca 
      ggtaccatc cataaccca acactatgc gccccaaca 
      tgcgttacg aaccattga acaatacgc tttgccatt 
      gccctacca tgaggtaag ggtaccaga agtaccgct 
      agtacacca ggaagtaga gcgacaaca tataagagt 
      accggaagt atcacaagt gcaccagga aatagaaca 
      acaatatat aagagtacc ggaagtacc acgaaacga 
      aatagccca tgggcaagt accactgga accagtggg 
      ccctagcta caaaactac catcattta tggtttaac 
      cggaaatcc ggaagacga ctctcgcta ctcgcaacc 
      acaggaaaa gtaccatgc ttcgtattc cgaaaaggt 
      accaaatgt ggtaccacc accacaacc atccaaggc 
      acactctga ccacaagcg cgaaagcgc ccccaaaga 
      acaattttt aatcgtttt tcctgatcg ctccaatta 
      aaaaattct ctgtttttt gtctaataa actaatttt 
      tatctaaat taaaggttt tgcgtccgt atttttcta 
      ttaatatta gtttttcgt agcattgtt gacagactt 
      agggtaaaa gtgtgtaaa ataacactg attttttcc 
      aaactggcg attagttaa ggtgttaat aatcaggtg 
      cgggtctca aatctgaca ctaacaatt aaatagggc 
      caaagggtt gatgtctca ctcgaattt cacggaaat 
      tatcggtgt atcattgtg ttgtggcag ttttaaggg 
      tgagtgagt cgactgacc tcaattcga aactcttgt 
      atctaagtc aatacgttt aagtaataa attaacttt 
      ttgaaattg tttcctagt ttttgtgtg ctgtaatta 
      gagctacat tcacttttc tcattttgc atgtgtgag 
      taaacaatg cgtttttga aaggttaag gcaaggacg 
      ttttgccgc gttcagccg gatttgaaa gaaagtggt 
      gcgattttg gaaattacg ccggggtta aggtttttt 
      atgcatgtg gagcatgaa agtgttaaa ttgttttga 
      atacgactt tcactgcga attaatttg gttcgaatt 
      tgttattat tctattaat aattaattt ataaaaagt 
      gaaaactgg gcaagagtt gctgcaata actcattga 
      cttgcaaat attccaaat aacacgaac agctactta 
      aacattttg tttgctaaa aatttcaaa aatgaatag 
      ttatgaact ttcattggc tattttttg gtactacgt 
      attcgtata aacttttaa aaaataaat gaataaaaa 
      atcttcaaa aataactaa taagaagtg ttaaataca 
      taatttttt tccagacat ttaagtttg tagcttgaa 
      tcaaagtta caatttcat ccttttttt gcaaatttt 
      aatattttt gatggaata agctgcacc tacttattt 
      tggatgatg atatcatca gaagtgata aaaaaaata 
      gtttacgct aacggctct gactctatg tttcgcgga 
      ttttgttga gttaaagac aaaaattat acacacgtg 
      ttatctctg taaagaaaa gaatctttt tgta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY