Status
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Gene information
General information
TC004677 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_007416.3: 167421..169445
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
    TC004677
    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_09893

    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: 30.0% (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


    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
    • >TC004677 RA
      MKLTDLAQS LEIWEKNEN CPFSCTCKL EHLTETAIY 
      RFMHTSKKK QSSHEVNSV EFNDVLYDD NLESELLDD 
      KPIVRSAIC ILQSEVEPL DLIAKLPPD LETLTLIQG 
      FNTGSKTIK FSYLSKFKH LLSLELLGP NLLNKMTNT 
      SLISEIDSP LPDLKYMNL ENIQIKNSK LQIQNFVKE 
      FNDVQTFEY VQKVDSKGH PLTMVQQGT NEEILPYEK 
      YKLQDDENK VPLFIGFKN LHLLRITHC ELNNVHWAM 
      FDGLNNLQY LILDKNNLR FIPPFAFYG TPNLKTLSL 
      ARNNLLDIQ ITDLAGLLE LEFLDLSHN NFSQLSELS 
      FPPFPKLKL ADFGNNPIT VIFPNTFEV MNTTDSLII 
      GSDDVNLSL MTNSFLGLN LLKALTLNN LNIRRLKRD 
      LFVGMPSLN DLTLTGNIT EIEFDTFLD VYKLKKLIL 
      SNCKLRNVS MDAFIGLEN LEILDLSKN ELEHLPPGV 
      FDQLINIKE IYLNGNKLG KLPQNIFAK IHPKMIRLN 
      DNPWHCSCE MSEWKPMII NRIKQKIVK TCDFTHDKG 
      VGCPQDNRF TFKYVYDNK KTRTVT
    CDS sequence
    • >TC004677 RA
      atgaaattg accgatttg gcccagagt ttggaaatt 
      tgggagaag aacgaaaac tgtccattt tcgtgcact 
      tgcaagctg gagcatttg accgaaacc gcgatttac 
      cgcttcatg cacaccagc aagaagaag caaagctcg 
      cacgaagtc aactcggtg gaattcaac gacgtgctt 
      tatgacgat aacttggag tcggaactg ctcgacgac 
      aaaccgatc gtgcgttcc gcaatttgc attttgcaa 
      tcggaggtt gaacccttg gacctgatc gcaaaactc 
      ccccccgac ttggagact ttaaccctg atccaaggc 
      ttcaacacg ggcagtaaa acaatcaag ttcagttat 
      ttgagcaaa ttcaaacac ttgctcagt ttggagctg 
      ctcgggccc aacctactt aacaaaatg acaaacact 
      agtctaatc agcgaaatc gattcgccc ctccccgac 
      ctgaaatac atgaacctc gagaacatc caaatcaaa 
      aactcgaaa ttgcaaatt caaaacttc gtcaaagaa 
      ttcaacgac gtgcagacg ttcgaatac gtgcagaaa 
      gtcgactcg aagggacac cccctcacg atggtgcag 
      caaggcacc aacgaggaa atcctcccc tatgagaaa 
      tacaaactg caggatgac gaaaacaaa gtcccgctt 
      tttatcggc tttaagaac ctgcacttg ctgaggatc 
      acgcactgc gagctcaac aacgtccac tgggccatg 
      tttgacggt ttgaacaac ttacaatac ctaattttg 
      gataaaaac aatctcagg tttattccc ccctttgcg 
      ttttatggc acgccaaac ttaaaaacg ttgtcgctt 
      gcgcgcaac aacttgctc gatattcaa ataacggac 
      ctggcgggg cttctggag ttggagttt ttggattta 
      tcgcataac aacttctcg caattgtcg gaactgtcg 
      ttccctccg ttccccaaa ttaaaactc gccgatttt 
      ggtaataac ccgattacg gtcattttc cccaacact 
      ttcgaagtc atgaatacg acggattcg ctcataatt 
      ggtagcgac gatgttaat ttatcgctg atgacaaac 
      tcgtttttg gggctaaac ctcctcaaa gctttgact 
      ttgaataat ctaaacatc cggcggctt aaacgcgac 
      ttattcgtc ggaatgcca agtctgaac gacctgact 
      ttgacgggc aacatcacc gagatagaa tttgacacg 
      tttttggac gtttacaag ttgaaaaaa ttaattttg 
      agcaactgt aaactacgg aatgtctca atggatgcg 
      ttcatcggt ttagaaaat ttggaaatt ttggacttg 
      tcgaaaaac gaactagag catttacca ccgggcgtt 
      ttcgaccag ttaataaac atcaaagaa atttacttg 
      aacgggaat aaattaggc aaattgccg caaaacatc 
      ttcgcgaaa attcacccg aaaatgatc cgtttgaac 
      gacaatccc tggcactgt tcctgcgaa atgagcgaa 
      tggaaacca atgataatc aaccgaatt aaacaaaaa 
      attgtaaaa acgtgcgac ttcacgcat gataaaggc 
      gtcgggtgt cctcaagac aaccgattt acttttaaa 
      tacgtttac gacaacaag aaaacacga actgttacg 
      taa
    mRNA sequence
    • >TC004677 RA
      tgactcgtc aaaatgtac gtaataagt ttgtttgtg 
      ttaattagc ccaattttc gtaagtatt gcgcttgta 
      cttgaatga aattgaccg atttggccc agagtttgg 
      aaatttggg agaagaacg aaaactgtc cattttcgt 
      gcacttgca agctggagc atttgaccg aaaccgcga 
      tttaccgct tcatgcaca ccagcaaga agaagcaaa 
      gctcgcacg aagtcaact cggtggaat tcaacgacg 
      tgctttatg acgataact tggagtcgg aactgctcg 
      acgacaaac cgatcgtgc gttccgcaa tttgcattt 
      tgcaatcgg aggttgaac ccttggacc tgatcgcaa 
      aactccccc ccgacttgg agactttaa ccctgatcc 
      aaggcttca acacgggca gtaaaacaa tcaagttca 
      gttatttga gcaaattca aacacttgc tcagtttgg 
      agctgctcg ggcccaacc tacttaaca aaatgacaa 
      acactagtc taatcagcg aaatcgatt cgcccctcc 
      ccgacctga aatacatga acctcgaga acatccaaa 
      tcaaaaact cgaaattgc aaattcaaa acttcgtca 
      aagaattca acgacgtgc agacgttcg aatacgtgc 
      agaaagtcg actcgaagg gacaccccc tcacgatgg 
      tgcagcaag gcaccaacg aggaaatcc tcccctatg 
      agaaataca aactgcagg atgacgaaa acaaagtcc 
      cgcttttta tcggcttta agaacctgc acttgctga 
      ggatcacgc actgcgagc tcaacaacg tccactggg 
      ccatgtttg acggtttga acaacttac aatacctaa 
      ttttggata aaaacaatc tcaggttta ttcccccct 
      ttgcgtttt atggcacgc caaacttaa aaacgttgt 
      cgcttgcgc gcaacaact tgctcgata ttcaaataa 
      cggacctgg cggggcttc tggagttgg agtttttgg 
      atttatcgc ataacaact tctcgcaat tgtcggaac 
      tgtcgttcc ctccgttcc ccaaattaa aactcgccg 
      attttggta ataacccga ttacggtca ttttcccca 
      acactttcg aagtcatga atacgacgg attcgctca 
      taattggta gcgacgatg ttaatttat cgctgatga 
      caaactcgt ttttggggc taaacctcc tcaaagctt 
      tgactttga ataatctaa acatccggc ggcttaaac 
      gcgacttat tcgtcggaa tgccaagtc tgaacgacc 
      tgactttga cgggcaaca tcaccgaga tagaatttg 
      acacgtttt tggacgttt acaagttga aaaaattaa 
      ttttgagca actgtaaac tacggaatg tctcaatgg 
      atgcgttca tcggtttag aaaatttgg aaattttgg 
      acttgtcga aaaacgaac tagagcatt taccaccgg 
      gcgttttcg accagttaa taaacatca aagaaattt 
      acttgaacg ggaataaat taggcaaat tgccgcaaa 
      acatcttcg cgaaaattc acccgaaaa tgatccgtt 
      tgaacgaca atccctggc actgttcct gcgaaatga 
      gcgaatgga aaccaatga taatcaacc gaattaaac 
      aaaaaattg taaaaacgt gcgacttca cgcatgata 
      aaggcgtcg ggtgtcctc aagacaacc gatttactt 
      ttaaatacg tttacgaca acaagaaaa cacgaactg 
      ttacgtaac aaaatcctc aaacatggc tcgcataac 
      ccaagtgtg agcaacgaa agcaatgac ttgaacgtc 
      ttaccgccg aaattgcgc aagcttcgg aagccgaaa 
      aaacacca
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