Status
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Gene information
General information
TC000575 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: 9529283..9531086
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
    TC000575
    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_03043

    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: 100.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 10 (9 dpi)
    Days post injection


    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
    • >TC000575 RA
      MKTYSRKKS GEAQDVILD LNELCRLCM AKEDELVPI 
      FNSDEAIPL TLRIMACVA LEVFEGDGL PNKICHPCK 
      FQLEKSYNF RKKCENSDM KLRQHLKSL QAKIGDADL 
      NVSGESEAA VEESQEKQE DEVKEPSTE EDLVGVTQV 
      AYIQPDPEP EDDPESITL PADADVVNK DACTLKSLK 
      REVMDVEDN EGDGVIFVD EASQEMEDT SYDAIADAV 
      KATLATQPG FDVSGQLQM KIIPTEGKL TQVEVTTEN 
      GTVIVMELM TEEEAEAPQ MSSTVPEVN EEGELKIFK 
      CPQCPKSFA RRIQLRRHA SVHMQQRGF SCGMCEKWF 
      PTRSALVRH ERIHTGERP FQCEICQKS FAQKEILYR 
      HLMTHSGQK PYNCTHCNK GFTQREPLR IHLRTHMTE 
      GSHDINLHY CSLCPKVFC HASGLSRHL VTHTGKTFK 
      CRDCDRSFT DKSSLRRHH KQTLHQP
    CDS sequence
    • >TC000575 RA
      atgaaaacc tacagtcgg aagaaatcc ggagaagct 
      caagacgtg atcttggat ctaaacgaa ttatgtcga 
      ttatgtatg gcaaaagag gacgaattg gtgccgatt 
      ttcaacagc gacgaagcc atccctttg accctgcgg 
      atcatggct tgtgtcgcc ctcgaggtt ttcgaaggc 
      gatggccta ccgaacaag atctgtcac ccgtgcaaa 
      ttccaactg gaaaaatcg tacaacttt cggaaaaaa 
      tgcgaaaac tcagacatg aaactgagg cagcatttg 
      aagagtctc caggctaag attggcgat gctgacctg 
      aacgtatca ggggagagc gaagcggca gttgaagaa 
      tcgcaagag aaacaagag gatgaagtt aaggaaccc 
      agcactgaa gaagacttg gtcggggtc acccaagtc 
      gcctacata caaccagac cccgaacct gaagacgat 
      cccgaaagt atcacttta ccggcggac gccgacgtc 
      gtgaataaa gacgcctgc accctgaaa tccctcaaa 
      agggaagtc atggatgtt gaagacaat gaaggcgac 
      ggagtcatt tttgtggat gaagcaagc caagaaatg 
      gaagacacg agctacgac gcgatcgca gacgcggtc 
      aaggccact cttgccacc cagccgggt tttgacgtg 
      tctggccag ctgcagatg aaaattatc cccacggag 
      ggcaagctg actcaggtg gaggtgacc acagaaaac 
      ggcacagtc atagtcatg gaactgatg accgaagaa 
      gaggccgaa gcgccccaa atgagctcc accgtgccg 
      gaagtcaac gaagaaggc gaattgaaa atcttcaag 
      tgtccccaa tgccccaag tccttcgca cggaggatt 
      cagctgcga aggcacgcc tcggttcac atgcaacag 
      agaggtttc agttgcggg atgtgcgag aagtggttt 
      cccactagg tcggctttg gtgcgtcac gagaggatt 
      catacgggg gagagaccc ttccagtgt gagatatgc 
      cagaagagt tttgcccag aaggagatt ctgtatcgg 
      catttgatg acacattcg ggacagaaa ccgtacaat 
      tgcacccat tgtaacaaa ggttttacg cagagggag 
      ccactgagg atccatctg aggacgcac atgacggaa 
      ggctcgcat gatatcaat ttacactat tgttccttg 
      tgtccgaaa gtattttgt catgcctcg ggtttgagt 
      cggcatttg gtcacccat acagggaag acctttaaa 
      tgtagggat tgtgatcgg tcgttcacg gataaatcg 
      tcgctgagg aggcaccac aaacaaaca ctgcatcaa 
      ccgtag
    mRNA sequence
    • >TC000575 RA
      ttccgccat cttggaaat acagataaa gtagtgagc 
      gtctctagc aatacgcga agtagataa ctgatttat 
      cataattta ccaacaaaa tgaaaacct acagtcgga 
      agaaatccg gagaagctc aagacgtga tcttggatc 
      taaacgaat tatgtcgat tatgtatgg caaaagagg 
      acgaattgg tgccgattt tcaacagcg acgaagcca 
      tccctttga ccctgcgga tcatggctt gtgtcgccc 
      tcgaggttt tcgaaggcg atggcctac cgaacaaga 
      tctgtcacc cgtgcaaat tccaactgg aaaaatcgt 
      acaactttc ggaaaaaat gcgaaaact cagacatga 
      aactgaggc agcatttga agagtctcc aggctaaga 
      ttggcgatg ctgacctga acgtatcag gggagagcg 
      aagcggcag ttgaagaat cgcaagaga aacaagagg 
      atgaagtta aggaaccca gcactgaag aagacttgg 
      tcggggtca cccaagtcg cctacatac aaccagacc 
      ccgaacctg aagacgatc ccgaaagta tcactttac 
      cggcggacg ccgacgtcg tgaataaag acgcctgca 
      ccctgaaat ccctcaaaa gggaagtca tggatgttg 
      aagacaatg aaggcgacg gagtcattt ttgtggatg 
      aagcaagcc aagaaatgg aagacacga gctacgacg 
      cgatcgcag acgcggtca aggccactc ttgccaccc 
      agccgggtt ttgacgtgt ctggccagc tgcagatga 
      aaattatcc ccacggagg gcaagctga ctcaggtgg 
      aggtgacca cagaaaacg gcacagtca tagtcatgg 
      aactgatga ccgaagaag aggccgaag cgccccaaa 
      tgagctcca ccgtgccgg aagtcaacg aagaaggcg 
      aattgaaaa tcttcaagt gtccccaat gccccaagt 
      ccttcgcac ggaggattc agctgcgaa ggcacgcct 
      cggttcaca tgcaacaga gaggtttca gttgcggga 
      tgtgcgaga agtggtttc ccactaggt cggctttgg 
      tgcgtcacg agaggattc atacggggg agagaccct 
      tccagtgtg agatatgcc agaagagtt ttgcccaga 
      aggagattc tgtatcggc atttgatga cacattcgg 
      gacagaaac cgtacaatt gcacccatt gtaacaaag 
      gttttacgc agagggagc cactgagga tccatctga 
      ggacgcaca tgacggaag gctcgcatg atatcaatt 
      tacactatt gttccttgt gtccgaaag tattttgtc 
      atgcctcgg gtttgagtc ggcatttgg tcacccata 
      cagggaaga cctttaaat gtagggatt gtgatcggt 
      cgttcacgg ataaatcgt cgctgagga ggcaccaca 
      aacaaacac tgcatcaac cgtaggttt cgtcgaata 
      tttttgtgg ctatatatt ttctttaag aatatactt 
      attcacact ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY