Status
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Gene information
General information
TC003706 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: 13217003..13221027
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
    TC003706
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00603

    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)

    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: 3 (9 dpi)
    Days post injection


    Fertility
    tropharium structure fragmented - Number of animals showing the phenotype: 4
    mature egg not present - Number of animals showing the phenotype: 4
    egg chamber sometimes fused - Number of animals showing the phenotype: 4

    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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003706 RA
      MSFSSDEVN FLVYRYLQE SGFQHSAYT FGIESHISR 
      SNINGALVP PAALLSILQ KGLQYTEAE ISIGEDGLE 
      QRLVESLSL IDAVMPDVV ASRQNQQNA QKQPIKSEI 
      TDTNGEEAV VSTQNENME VDTSIEIPT SKATVLRGH 
      ESEVFICAW NPTTDLLAS GSGDSTARI WDMSDNTAS 
      PNQLVLRHC IQKGGTEVP SNKDVTSLD WNCDGSLLA 
      TGSYDGYAR IWTTDGRLA STLGQHKGP IFALKWNKR 
      GNYILSAGV DKTTIIWDA ASGQCTQQF SFHSAPALD 
      VDWQTNTSF ASCSTDQCI HVCKLSLDK PIKSFQGHT 
      NEVNAIKWD PQGNFLASC SDDMTLKIW SMKQDNCVH 
      DLQAHSKEI YTIKWSPTG PGTQNPNMN LILASASFD 
      STVRLWDVE RGACIHTLT KHTEPVYSV AFSPDGKFL 
      ASGSFDKCV HIWSTQSGQ LVHSYKGTG GIFEVCWNS 
      RGDKVGASA SDGSVFVLD LRKL
    CDS sequence
    • >TC003706 RA
      atgagtttt tccagcgac gaagtgaat ttccttgtt 
      tatcggtac ttgcaagag tcgggtttt caacattct 
      gcttatact ttcggtatt gagtcgcat atttcccga 
      tcaaacatc aatggggct cttgtaccg cccgccgca 
      cttctcagt attttacag aaaggtttg caatacact 
      gaagctgaa atcagtata ggagaggat ggactggaa 
      cagagatta gtggagagc ttaagttta atcgatgct 
      gtgatgcct gatgtggtg gcgagtcgc caaaatcag 
      cagaatgca caaaaacag ccgatcaaa tcggaaatt 
      actgataca aatggcgaa gaagctgta gtgtcaaca 
      cagaatgaa aacatggaa gtagacaca tctatcgag 
      attccaact tccaaagct acagttttg agggggcat 
      gagtcagag gttttcatt tgtgcgtgg aatcccact 
      actgatttg ttagcaagt ggctctggg gacagcaca 
      gccagaatt tgggacatg tctgataac acagcaagc 
      cccaatcaa ttagtactg aggcactgc atccagaag 
      gggggcact gaagtgcca agcaacaag gatgttact 
      tcactagac tggaattgc gacggcagt ttattggca 
      acaggaagc tacgacggc tacgccagg atatggacc 
      actgacggt cgccttgcc agtactttg ggccagcac 
      aagggcccc attttcgct ctgaaatgg aacaaacgt 
      ggcaactac atcctttca gccggtgtt gacaaaacc 
      acaatcatt tgggacgcg gcaagcggc caatgcacc 
      caacagttc agttttcac tcagcccca gccttggac 
      gtggactgg caaaccaac acatccttt gccagctgt 
      tcaacagac cagtgcatc cacgtttgc aaactatcc 
      ttagataaa ccaatcaaa tcgttccaa ggacacaca 
      aatgaagtc aacgctatc aaatgggac ccccaaggc 
      aatttcctg gcatcgtgt tctgacgac atgactttg 
      aagatttgg tcaatgaaa caagacaat tgcgtccac 
      gatttacaa gctcattcg aaggaaatt tacacgatt 
      aagtggtca ccaacaggg cccgggacg caaaatccc 
      aatatgaat ttaatcctc gcgtctgca agtttcgat 
      tcaactgtt aggttgtgg gatgtggag agaggcgct 
      tgcatacac actttgacc aagcacact gaacccgtc 
      tattctgtg gcgttcagt ccagatggg aaatttctg 
      gcgagcggg agtttcgac aaatgcgtt catatttgg 
      tcaacacag tctggacaa ttggtgcat agttataaa 
      ggcacagga ggtattttt gaggtttgt tggaactcg 
      agaggggat aaagttggg gccagcgct tcagatggc 
      agtgtgttt gttttagat ttgcgtaaa ttataa
    mRNA sequence
    • >TC003706 RA
      ggtcagtga cgtgcggcg ttgccgtgt gtgtttcaa 
      aagcacaaa ctttatgtt ttggtggcg tcatttacc 
      gaattttcc gtgaaaaac tgtaatatt gcctgaaca 
      atattacca cgatgagtt tttccagcg acgaagtga 
      atttccttg tttatcggt acttgcaag agtcgggtt 
      ttcaacatt ctgcttata ctttcggta ttgagtcgc 
      atatttccc gatcaaaca tcaatgggg ctcttgtac 
      cgcccgccg cacttctca gtattttac agaaaggtt 
      tgcaataca ctgaagctg aaatcagta taggagagg 
      atggactgg aacagagat tagtggaga gcttaagtt 
      taatcgatg ctgtgatgc ctgatgtgg tggcgagtc 
      gccaaaatc agcagaatg cacaaaaac agccgatca 
      aatcggaaa ttactgata caaatggcg aagaagctg 
      tagtgtcaa cacagaatg aaaacatgg aagtagaca 
      catctatcg agattccaa cttccaaag ctacagttt 
      tgagggggc atgagtcag aggttttca tttgtgcgt 
      ggaatccca ctactgatt tgttagcaa gtggctctg 
      gggacagca cagccagaa tttgggaca tgtctgata 
      acacagcaa gccccaatc aattagtac tgaggcact 
      gcatccaga aggggggca ctgaagtgc caagcaaca 
      aggatgtta cttcactag actggaatt gcgacggca 
      gtttattgg caacaggaa gctacgacg gctacgcca 
      ggatatgga ccactgacg gtcgccttg ccagtactt 
      tgggccagc acaagggcc ccattttcg ctctgaaat 
      ggaacaaac gtggcaact acatccttt cagccggtg 
      ttgacaaaa ccacaatca tttgggacg cggcaagcg 
      gccaatgca cccaacagt tcagttttc actcagccc 
      cagccttgg acgtggact ggcaaacca acacatcct 
      ttgccagct gttcaacag accagtgca tccacgttt 
      gcaaactat ccttagata aaccaatca aatcgttcc 
      aaggacaca caaatgaag tcaacgcta tcaaatggg 
      acccccaag gcaatttcc tggcatcgt gttctgacg 
      acatgactt tgaagattt ggtcaatga aacaagaca 
      attgcgtcc acgatttac aagctcatt cgaaggaaa 
      tttacacga ttaagtggt caccaacag ggcccggga 
      cgcaaaatc ccaatatga atttaatcc tcgcgtctg 
      caagtttcg attcaactg ttaggttgt gggatgtgg 
      agagaggcg cttgcatac acactttga ccaagcaca 
      ctgaacccg tctattctg tggcgttca gtccagatg 
      ggaaatttc tggcgagcg ggagtttcg acaaatgcg 
      ttcatattt ggtcaacac agtctggac aattggtgc 
      atagttata aaggcacag gaggtattt ttgaggttt 
      gttggaact cgagagggg ataaagttg gggccagcg 
      cttcagatg gcagtgtgt ttgttttag atttgcgta 
      aattataat tctttttta tgtacgtgt agataattt 
      tatatttta actatttta agggaaaag atgttgcaa 
      tttattttg actgttgca aaaaaagag cgacaatat 
      aattattag caacta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY