Status
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Gene information
General information
TC005713 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_007423.3: 8570552..8572948
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
    TC005713
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10659

    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: 2 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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
    • >TC005713 RA
      MVKLKMPPY RLWIAVMVF MTTFTNYML RANISVSII 
      SMVEKSKKN HTAFCATAA DNSTKPAAK DTTGSQTFN 
      WSEGDVGWI LSAYFYGYF LTTIPGGVV SNYIGPWHT 
      LLWSSLGSA VLTGLTPLC AISGGVGGV CASRFFIGF 
      LGGAAYPAV NDLIAKWAP PQEKGKFLA AMMGNTLGT 
      VVTWNLVAA ATSAWGWEW GFYVLAIFM MVYCIVFGI 
      IVRDRPDLH PWVSDEEKK HILESQEGH LTKKKGFPP 
      YHKMLCCNF PFWALAIAQ LGNLWGLNL IITYAPKFM 
      AETLGFNIK ASAGLAALP YIGRLIGSN IFGIIGDFM 
      RKKDIMSVT KIRKFFIIF SHFIPGLCL ILIRAFGCI 
      KEGVIAMLV LNQGFNGAC VVSHLVNAQ DLAPNFAGS 
      VYGIINFFG MTTGIFVPP ITGYLNTNY TGFKGPTLI 
      FMIGGIAYI ATGAIFIIF GSAEVQPWN KKEGEEED
    CDS sequence
    • >TC005713 RA
      atggttaaa ttaaaaatg ccaccatat cggctatgg 
      atcgctgta atggttttt atgacaact tttacaaac 
      tacatgctg agagcgaac atatccgtg agtataatc 
      agcatggtt gaaaaatcg aagaagaat catacagct 
      ttttgtgca actgctgcc gacaattca actaaacct 
      gccgccaag gacacaaca ggaagtcaa accttcaac 
      tggagcgaa ggagatgta ggttggatc ctttctgcc 
      tatttctac ggctacttc ctcacaact atacctgga 
      ggagtggtt tcaaattac atcggccct tggcacacc 
      cttctgtgg tcgagcctt ggcagcgcc gtcttgact 
      ggtttgact cccctttgc gccatatca ggaggtgtg 
      ggaggggtt tgtgctagc cgatttttc atcggcttt 
      cttgggggg gcagcatat ccggctgtg aacgattta 
      atcgcaaag tgggcacca ccccaggaa aagggcaaa 
      tttttggca gccatgatg ggcaacacc ttggggacg 
      gtggtgact tggaatctg gtggcagcg gccacgtcg 
      gcctggggg tgggaatgg gggttttac gtcttggcc 
      attttcatg atggtttat tgcattgtc tttggaata 
      attgtgagg gatagaccc gatctacac ccttgggtt 
      tccgacgaa gaaaagaaa catattttg gaatctcaa 
      gaagggcat cttacaaaa aagaaggga tttccccca 
      tatcacaaa atgttatgt tgcaatttt cccttctgg 
      gccttggcc atagcccag ttgggtaat ttgtggggc 
      ttgaatctg atcatcact tacgccccc aaattcatg 
      gccgaaacc ttgggcttc aatattaaa gcctcagcc 
      ggccttgct gcccttcca tacattggt cgcctcatc 
      ggcagtaat attttcgga atcattggc gattttatg 
      cggaaaaaa gatataatg tctgtgacc aaaatccga 
      aaattcttt ataattttt tcccatttt atcccaggc 
      ctctgtttg atactgatc cgagccttc ggatgtata 
      aaagaaggc gtcatagcc atgctggtg ctaaatcaa 
      ggattcaac ggcgcatgc gtggtcagc catttggtc 
      aatgcgcaa gatttagct ccgaatttc gcaggatcc 
      gtttacgga atcattaat ttcttcggc atgaccacg 
      ggaattttt gtacccccg ataacggga tacttgaat 
      acgaattat acaggattt aaaggcccc acgctgata 
      ttcatgatt ggaggaata gcgtatata gccaccggt 
      gccatattt ataattttt ggatcggct gaggtgcag 
      ccttggaac aaaaaggaa ggcgaggag gaggactag
    mRNA sequence
    • >TC005713 RA
      attaaaaat cgtgttgat aacattgtc ttaatttat 
      taattaaca cgagtggca ttatccgtt cccccttaa 
      ttagtccgt aaaagtagg taagtaccg actttcaag 
      tgcatgata acacgaaaa atctcaaca aaaaatcag 
      caatcctca tttgtgaca cgacaagtc aaaatttgt 
      cctttttgg cagttgtga tcctgtttg ttcacgatg 
      gttaaatta aaaatgcca ccatatcgg ctatggatc 
      gctgtaatg gtttttatg acaactttt acaaactac 
      atgctgaga gcgaacata tccgtgagt ataatcagc 
      atggttgaa aaatcgaag aagaatcat acagctttt 
      tgtgcaact gctgccgac aattcaact aaacctgcc 
      gccaaggac acaacagga agtcaaacc ttcaactgg 
      agcgaagga gatgtaggt tggatcctt tctgcctat 
      ttctacggc tacttcctc acaactata cctggagga 
      gtggtttca aattacatc ggcccttgg cacaccctt 
      ctgtggtcg agccttggc agcgccgtc ttgactggt 
      ttgactccc ctttgcgcc atatcagga ggtgtggga 
      ggggtttgt gctagccga tttttcatc ggctttctt 
      gggggggca gcatatccg gctgtgaac gatttaatc 
      gcaaagtgg gcaccaccc caggaaaag ggcaaattt 
      ttggcagcc atgatgggc aacaccttg gggacggtg 
      gtgacttgg aatctggtg gcagcggcc acgtcggcc 
      tgggggtgg gaatggggg ttttacgtc ttggccatt 
      ttcatgatg gtttattgc attgtcttt ggaataatt 
      gtgagggat agacccgat ctacaccct tgggtttcc 
      gacgaagaa aagaaacat attttggaa tctcaagaa 
      gggcatctt acaaaaaag aagggattt cccccatat 
      cacaaaatg ttatgttgc aattttccc ttctgggcc 
      ttggccata gcccagttg ggtaatttg tggggcttg 
      aatctgatc atcacttac gcccccaaa ttcatggcc 
      gaaaccttg ggcttcaat attaaagcc tcagccggc 
      cttgctgcc cttccatac attggtcgc ctcatcggc 
      agtaatatt ttcggaatc attggcgat tttatgcgg 
      aaaaaagat ataatgtct gtgaccaaa atccgaaaa 
      ttctttata attttttcc cattttatc ccaggcctc 
      tgtttgata ctgatccga gccttcgga tgtataaaa 
      gaaggcgtc atagccatg ctggtgcta aatcaagga 
      ttcaacggc gcatgcgtg gtcagccat ttggtcaat 
      gcgcaagat ttagctccg aatttcgca ggatccgtt 
      tacggaatc attaatttc ttcggcatg accacggga 
      atttttgta cccccgata acgggatac ttgaatacg 
      aattataca ggatttaaa ggccccacg ctgatattc 
      atgattgga ggaatagcg tatatagcc accggtgcc 
      atatttata atttttgga tcggctgag gtgcagcct 
      tggaacaaa aaggaaggc gaggaggag gactagatt 
      attttgttt tgttttcaa atttttgtg ccgtattca 
      cttattgtt tatgtaata cttgccaaa taaacaatc 
      tcgattatc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY