Status
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Gene information
General information
TC000687 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: 7589176..7591303
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
    TC000687
    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_00154

    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
    abdomen partially circumference decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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
    • >TC000687 RA
      MPSNNTKVV KSPTENMLL SPAETPSQV VPEKVKMKK 
      QLGLLEGVA IILGIIFGS GIFISPKGI IQEVNSVGF 
      SLVVWVLCG LLSMIGALC YAELGTTIP KSGGDYAYI 
      YEAFGPLPS FLYLWAANL IFVPTTNAI MGLTFAKYV 
      IQPFFRSCD LPEDGATVV AACTICFLT FLNGYNVKA 
      TTRVQNVFM FCKIGALVL VIIIGVVWM GFGHVENFQ 
      RPFEGTTTN VGKMSKAFY SGIFSYSGW NYLNFMTEE 
      LKNPYVNLP RAIYLSIPL VTLIYVLAN MAYLSVLTP 
      DAMISSDAI AVTFGNNVL GSWAWIIPV MVAISAFGG 
      LSVHIMTSS RMLYVGARN GHFPTMLSH LNIQKCSPM 
      PSLAFLNIL SLFMLCTND IHTLITYCT IVESFFVML 
      SVSGLLYLR WKKPEIARP IKVNIVVPI IFVLICLFL 
      IILPCFEAP YEVLGGVLI TLSGVPVYF RAVRQNKPL 
      LPQSFMAKM TEICQKIFI SAHEDEDVE E
    CDS sequence
    • >TC000687 RA
      atgccttca aacaatacc aaagtagtg aaatcacca 
      acagaaaac atgctccta tcacccgcc gaaacccca 
      tctcaggtg gtgccagaa aaagtcaaa atgaagaag 
      cagttaggc ttgcttgaa ggagtcgcg attattttg 
      gggatcata tttgggtca gggattttt atttcgcca 
      aaggggata atccaggaa gtaaattca gtcggattc 
      tcgctagtt gtgtgggtt ctttgtgga ttattatca 
      atgattggg gccctgtgt tatgccgag ttgggcaca 
      actataccc aaatcaggg ggcgactat gcctacatc 
      tatgaggct ttcggcccc ttaccttca tttttgtat 
      ttgtgggcg gcaaactta atttttgta cccacaact 
      aacgcaatc atgggcctc acgtttgcc aaatacgtg 
      attcaacct ttcttccgc tcgtgcgat ttaccagag 
      gatggagcc acagttgtg gccgcttgt acaatttgc 
      ttccttact tttttgaac ggttataac gtgaaagcc 
      accacgagg gtgcaaaat gtgttcatg ttttgcaaa 
      attggggcg cttgtactt gtcattatt attggggtc 
      gtgtggatg ggctttgga cacgtggag aattttcag 
      aggcccttt gagggaacg actaccaac gtgggcaaa 
      atgtccaaa gctttctac tcgggaatt ttctcatac 
      tcgggctgg aattatttg aattttatg acggaggaa 
      ctgaagaat ccttacgtt aatcttcca cgagcaatt 
      tatctttca atacctcta gttacactg atttatgtt 
      ttggcaaac atggcctat ttgtcagtc ctaacaccg 
      gacgctatg atatcttca gatgccata gctgtgact 
      tttggtaac aatgtgttg gggagctgg gcttggatt 
      atcccagtg atggtcgcg atctcggcc tttggaggc 
      ctcagtgtt cacatcatg acatcctca cgcatgttg 
      tatgtgggt gccagaaat ggccacttt cccacaatg 
      ctctctcat ttgaacatt caaaagtgt tcaccaatg 
      ccttcgctc gcatttctt aacatcctt tctctcttc 
      atgctgtgc actaacgac atccataca cttatcacg 
      tactgcact attgtggaa tcatttttc gtcatgttg 
      tccgtgtcg ggacttttg tacttgagg tggaagaaa 
      ccagaaatc gcaagacca atcaaagtc aatatcgta 
      gttccaatt atcttcgtc ttaatttgt ctgtttctt 
      atcatttta ccgtgtttt gaagctccc tatgaggtg 
      ttagggggc gtgttaatc accttgtcg ggagtacct 
      gtttatttt agggccgtc agacaaaat aagccttta 
      ttaccgcaa agcttcatg gccaaaatg actgaaata 
      tgtcaaaaa atatttatt tctgctcat gaggatgaa 
      gacgtggag gagtaa
    mRNA sequence
    • >TC000687 RA
      caacatgcg cccaagcaa ctaacctga aaaatgcac 
      gtgtgctat ttgtagcat tgcattggt tttgtttcc 
      gttaaaata gcagtatta tacgaatct ctagcaaga 
      acaaactgg taaaagtaa aatttctag tcaatacaa 
      aaaattacc aaaaatgcc ttcaaacaa taccaaagt 
      agtgaaatc accaacaga aaacatgct cctatcacc 
      cgccgaaac cccatctca ggtggtgcc agaaaaagt 
      caaaatgaa gaagcagtt aggcttgct tgaaggagt 
      cgcgattat tttggggat catatttgg gtcagggat 
      ttttatttc gccaaaggg gataatcca ggaagtaaa 
      ttcagtcgg attctcgct agttgtgtg ggttctttg 
      tggattatt atcaatgat tggggccct gtgttatgc 
      cgagttggg cacaactat acccaaatc agggggcga 
      ctatgccta catctatga ggctttcgg ccccttacc 
      ttcattttt gtatttgtg ggcggcaaa cttaatttt 
      tgtacccac aactaacgc aatcatggg cctcacgtt 
      tgccaaata cgtgattca acctttctt ccgctcgtg 
      cgatttacc agaggatgg agccacagt tgtggccgc 
      ttgtacaat ttgcttcct tactttttt gaacggtta 
      taacgtgaa agccaccac gagggtgca aaatgtgtt 
      catgttttg caaaattgg ggcgcttgt acttgtcat 
      tattattgg ggtcgtgtg gatgggctt tggacacgt 
      ggagaattt tcagaggcc ctttgaggg aacgactac 
      caacgtggg caaaatgtc caaagcttt ctactcggg 
      aattttctc atactcggg ctggaatta tttgaattt 
      tatgacgga ggaactgaa gaatcctta cgttaatct 
      tccacgagc aatttatct ttcaatacc tctagttac 
      actgattta tgttttggc aaacatggc ctatttgtc 
      agtcctaac accggacgc tatgatatc ttcagatgc 
      catagctgt gacttttgg taacaatgt gttggggag 
      ctgggcttg gattatccc agtgatggt cgcgatctc 
      ggcctttgg aggcctcag tgttcacat catgacatc 
      ctcacgcat gttgtatgt gggtgccag aaatggcca 
      ctttcccac aatgctctc tcatttgaa cattcaaaa 
      gtgttcacc aatgccttc gctcgcatt tcttaacat 
      cctttctct cttcatgct gtgcactaa cgacatcca 
      tacacttat cacgtactg cactattgt ggaatcatt 
      tttcgtcat gttgtccgt gtcgggact tttgtactt 
      gaggtggaa gaaaccaga aatcgcaag accaatcaa 
      agtcaatat cgtagttcc aattatctt cgtcttaat 
      ttgtctgtt tcttatcat tttaccgtg ttttgaagc 
      tccctatga ggtgttagg gggcgtgtt aatcacctt 
      gtcgggagt acctgttta ttttagggc cgtcagaca 
      aaataagcc tttattacc gcaaagctt catggccaa 
      aatgactga aatatgtca aaaaatatt tatttctgc 
      tcatgagga tgaagacgt ggaggagta atttttgta 
      ttgtttagg tagtttcgt taaaaaaaa a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY