Status
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Gene information
General information
TC003004 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_007418.3: 4917366..4919515
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
    TC003004
    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_00497

    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: 1 (3 dpi)
    Days post injection


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


    adult lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    Phenotype after larval injection
    TR: 47802 potentially confused/crosscontaminated with : iB # (comma separated) 00513
    maybe confused with iB00513
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 6 (19 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (19 dpi)
    Days post injection


    Pupal morphology
    antenna orientation irregular - Number of animals showing the phenotype: 3

    wings shortened - Number of animals showing the phenotype: 3
    oblique dorsal thoracic muscles shortened - Number of animals showing the phenotype: 2

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003004 RA
      MNLELLESF GQNYPEEFD GTLDSLSIA VTCAFNKRG 
      TLLAVGCND GRIVIWDFL TRGIAKVIS AHVHPVCSI 
      SWSRTGYKI ASASTDNTV CIWDILSGE CEQKYRFPC 
      PVLKVQFEP RSMERLLVC PMRHAAVLV DTNGGHKVL 
      PIDDDGDLN ISASFDRRG DYVYTGNAK GKVLVLDSR 
      TLEVKASFR VILGTSSAT AVKSIEFAR RGDWFLINT 
      ADRVIRVYD SKEVLACGK DGEPEPIQK LQDLVNKTM 
      WKKCCFSGD GEYICAGSA RQHALYIWE KSIGNLVKI 
      LHGTKGELL LDVAWHPVR PIIASISSG VVSVWAQNQ 
      VENWSAFAP DFKELDENV EYDERESEF DITDEDKSV 
      ASGGDDKED TDMEVDVCA VEPVPAFCS SDEENENTG 
      CLQFLPIAP EIEDPEDTW TPADTNLPP VGQGSGPPP 
      AKKKKYKSY DVALENTSD AEVHPLLSS KTKDKQVMG 
      GKKAAGRPR K
    CDS sequence
    • >TC003004 RA
      atgaattta gagttgttg gaatctttc ggtcagaac 
      taccccgaa gaattcgac ggcacgctc gactcgctc 
      tcaatcgcc gtaacatgc gctttcaac aaacggggg 
      accctccta gccgtgggc tgcaatgac ggcaggatc 
      gtaatttgg gacttcctg actcggggc atcgccaaa 
      gttatctca gcccatgtc cacccggtt tgcagcatc 
      agttggtcg cgcaccggc tacaagatc gcgtccgcg 
      tcgacggac aacaccgtc tgcatctgg gatatactg 
      tcaggggag tgcgagcag aagtaccgg ttcccatgc 
      cccgtcctc aaggtccag ttcgagccc aggagcatg 
      gagaggctc ctggtgtgc cccatgagg cacgcggcg 
      gttttggtc gacacgaac gggggccac aaagtgctg 
      ccaattgac gatgatggc gacttgaac atttccgct 
      tcgttcgat aggaggggc gattatgtg tacacgggt 
      aacgcgaag gggaaggtc ctggttttg gattcgcgg 
      accttggaa gttaaggcc agttttcgg gttattttg 
      gggacttcg agcgcgaca gcggtcaaa agtatcgaa 
      tttgccagg aggggagac tggtttttg ataaataca 
      gccgaccga gtgattcgt gtttacgac agtaaggag 
      gtcctagcg tgtgggaaa gacggggaa ccggaaccc 
      atccaaaag ttgcaagat ttggtcaat aagacaatg 
      tggaagaag tgttgcttt tcgggcgat ggtgagtac 
      atttgtgcc ggttctgcg cgacaacac gccctgtat 
      atttgggaa aaatcgatc gggaatttg gttaaaatt 
      cttcatggg accaaagga gagttgctt ttggacgtg 
      gcttggcat ccagtccgg cctattatt gctagcatt 
      tcttctggt gttgtgagc gtttgggcc caaaatcaa 
      gtcgagaac tggtccgct ttcgcgccg gactttaaa 
      gagttggac gaaaacgtt gaatatgat gagcgggag 
      agtgagttt gatataact gacgaagat aagtcggtt 
      gccagtggt ggagatgat aaggaagat actgatatg 
      gaggttgat gtgtgtgct gttgagccg gtaccggct 
      ttttgtagt tcagatgag gaaaatgaa aataccggt 
      tgtcttcaa tttttacca attgcccca gaaatagaa 
      gatcctgaa gatacgtgg actcctgct gatactaat 
      ttacctcca gtgggacaa ggaagtgga cctccgcca 
      gctaaaaag aaaaaatac aagtcgtat gatgttgca 
      ctcgaaaat accagcgat gcagaggtg cacccattg 
      ctcagcagc aagacgaaa gacaagcaa gtgatgggc 
      gggaagaag gcggcggga cggcccagg aaataa
    mRNA sequence
    • >TC003004 RA
      cgttttgac agatttgtc aacaacaaa caactattt 
      tttacgttt aaactttcg tttatcatg gaaataatt 
      agaatttag tactaggag ccaagctat cgccacatt 
      ctttaacaa tacgatgaa tttagagtt gttggaatc 
      tttcggtca gaactaccc cgaagaatt cgacggcac 
      gctcgactc gctctcaat cgccgtaac atgcgcttt 
      caacaaacg ggggaccct cctagccgt gggctgcaa 
      tgacggcag gatcgtaat ttgggactt cctgactcg 
      gggcatcgc caaagttat ctcagccca tgtccaccc 
      ggtttgcag catcagttg gtcgcgcac cggctacaa 
      gatcgcgtc cgcgtcgac ggacaacac cgtctgcat 
      ctgggatat actgtcagg ggagtgcga gcagaagta 
      ccggttccc atgccccgt cctcaaggt ccagttcga 
      gcccaggag catggagag gctcctggt gtgccccat 
      gaggcacgc ggcggtttt ggtcgacac gaacggggg 
      ccacaaagt gctgccaat tgacgatga tggcgactt 
      gaacatttc cgcttcgtt cgataggag gggcgatta 
      tgtgtacac gggtaacgc gaaggggaa ggtcctggt 
      tttggattc gcggacctt ggaagttaa ggccagttt 
      tcgggttat tttggggac ttcgagcgc gacagcggt 
      caaaagtat cgaatttgc caggagggg agactggtt 
      tttgataaa tacagccga ccgagtgat tcgtgttta 
      cgacagtaa ggaggtcct agcgtgtgg gaaagacgg 
      ggaaccgga acccatcca aaagttgca agatttggt 
      caataagac aatgtggaa gaagtgttg cttttcggg 
      cgatggtga gtacatttg tgccggttc tgcgcgaca 
      acacgccct gtatatttg ggaaaaatc gatcgggaa 
      tttggttaa aattcttca tgggaccaa aggagagtt 
      gcttttgga cgtggcttg gcatccagt ccggcctat 
      tattgctag catttcttc tggtgttgt gagcgtttg 
      ggcccaaaa tcaagtcga gaactggtc cgctttcgc 
      gccggactt taaagagtt ggacgaaaa cgttgaata 
      tgatgagcg ggagagtga gtttgatat aactgacga 
      agataagtc ggttgccag tggtggaga tgataagga 
      agatactga tatggaggt tgatgtgtg tgctgttga 
      gccggtacc ggctttttg tagttcaga tgaggaaaa 
      tgaaaatac cggttgtct tcaattttt accaattgc 
      cccagaaat agaagatcc tgaagatac gtggactcc 
      tgctgatac taatttacc tccagtggg acaaggaag 
      tggacctcc gccagctaa aaagaaaaa atacaagtc 
      gtatgatgt tgcactcga aaataccag cgatgcaga 
      ggtgcaccc attgctcag cagcaagac gaaagacaa 
      gcaagtgat gggcgggaa gaaggcggc gggacggcc 
      caggaaata actttataa tttctcatt tattacgtt 
      ttatttaga atcaattct ctttatcgt gctgtcgta 
      gaataaaaa gtatacttt caa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY