Status
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Gene information
General information
TC007539 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_007419.2: 3185207..3187266
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
    TC007539
    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_01216

    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: 40.0% (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: 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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007539 RA
      MFVAITVLC LLVPSQLAA VIKNENLFQ YINPTPDNE 
      LLREDKQFW YDVGNNYLE KNLRYDHES TTKVAKNVV 
      ILIGDGMGI STITATRIY KGQRSGKSG EDHTLAYDN 
      FPNVALVKT YNVDMQVPD SAGTATALF TGVKTRYEA 
      VGVDVNCNK TIADRTVFE ASKLEGIMT WAQQANKST 
      GIVTTTRIT HATPASTYA HAHYREWEC DSEMPQEFK 
      PFVKDIARQ LVEDAPGNN FKVILGGGY QQMGHIFED 
      LSDGECVRN DTLNLTQTW IDDHKGLKA SFVTNNQQL 
      ENVGDVDYL LGLFYPDHL PYELLRNKG LDGTPSLSQ 
      MTKKGLDIL QKNPNGFVL MVEGGRIDH GHHDNYARL 
      ALEEASEFE KTVALIVET CGPETLILV TADHSHAMT 
      LNGYSRRGN DILGYGLET EDDKPALTL TYANGPGFA 
      YHFSPNVST VLGPWRDVR EDWNRLNNP KYQQMASFE 
      LDDETHGGE DVAIFGTGP GSHLVRGVV EQNYVAHLI 
      SYAACIGPR AGINPRCAK NLDVSLVGN FYLLFSMLF 
      FLNKL
    CDS sequence
    • >TC007539 RA
      atgtttgtc gcaattacg gttttgtgt cttttagtt 
      ccttcacaa ttggctgca gtgataaaa aatgaaaat 
      ctgttccag tacataaat cctactcct gataacgag 
      ctacttcgt gaagataaa cagttctgg tacgatgtt 
      ggtaacaac tatttggaa aaaaactta agatatgac 
      cacgaaagc accacgaaa gtggccaaa aacgtcgtt 
      attttaatc ggggatggg atggggatt agcaccatc 
      acagccaca cggatctat aagggccaa agaagtggg 
      aaaagcggt gaagatcac acgcttgcc tacgacaac 
      tttcccaat gttgcccta gttaagact tataatgtg 
      gatatgcaa gtgccagat tctgccgga actgccact 
      gctctcttc acaggtgtt aaaacccga tatgaagcg 
      gtcggtgtt gatgttaat tgcaataaa actattgcc 
      gatcggacc gtttttgag gccagcaaa cttgagggt 
      atcatgact tgggcgcaa caagccaac aaaagcact 
      ggcattgtt accaccacc agaataaca cacgctact 
      cctgcctca acttacgcc catgcccat tatcgggaa 
      tgggagtgt gacagcgaa atgccccaa gagttcaaa 
      ccttttgtc aaagacatc gccagacaa ctggtggag 
      gacgcccct ggtaacaat ttcaaggtc atactcggg 
      ggaggttac cagcaaatg ggccacatt ttcgaagat 
      ctgagcgac ggtgaatgc gtcagaaat gatactttg 
      aatctcacg caaacatgg attgatgat cacaaaggg 
      cttaaggct tcgtttgtg acaaataac caacaactg 
      gagaatgtg ggtgatgtg gattatctt ttggggctt 
      ttttacccc gaccatctc ccgtacgaa ttgttgcgt 
      aacaaaggg ctcgacgga accccgagt ctctcccaa 
      atgaccaaa aaaggtcta gatattttg caaaagaac 
      cccaatggg tttgtccta atggttgaa ggcggtcgt 
      atcgaccac ggccaccac gacaattac gcccgacta 
      gcactggag gaagcatca gagtttgag aaaactgtg 
      gccctaatt gtggaaacc tgcggccct gagactcta 
      attctggtg accgcggac cattcgcac gccatgaca 
      ctgaacggt tacagccgg cgcggaaat gacatttta 
      ggatatggg cttgagacg gaagatgac aaaccggcc 
      ctcacttta acctacgcc aacgggccg ggattcgcc 
      taccacttt tcccccaac gtttcgacg gttttgggc 
      ccttggcgt gatgtcaga gaggattgg aaccgtctg 
      aataacccg aaatatcaa cagatggcg agttttgag 
      ctcgatgat gagacgcat gggggcgaa gatgttgct 
      atttttggg acagggccc ggctcgcat cttgtccgg 
      ggagtggtt gagcaaaac tatgtcgca catttgatc 
      agctatgcg gcttgtatc gggcctagg gccggaatt 
      aacccgcgg tgtgcgaaa aatctggac gtttcactt 
      gtcggcaat ttttattta ctgttttcg atgctgttt 
      ttcttaaat aaattataa
    mRNA sequence
    • >TC007539 RA
      tcacatgaa aaactgtta tttaaagta aagtaaagt 
      gtaactgga acagttatc aggaaaact gtcaaactt 
      aatcttgaa aaaaccaaa atgtttgtc gcaattacg 
      gttttgtgt cttttagtt ccttcacaa ttggctgca 
      gtgataaaa aatgaaaat ctgttccag tacataaat 
      cctactcct gataacgag ctacttcgt gaagataaa 
      cagttctgg tacgatgtt ggtaacaac tatttggaa 
      aaaaactta agatatgac cacgaaagc accacgaaa 
      gtggccaaa aacgtcgtt attttaatc ggggatggg 
      atggggatt agcaccatc acagccaca cggatctat 
      aagggccaa agaagtggg aaaagcggt gaagatcac 
      acgcttgcc tacgacaac tttcccaat gttgcccta 
      gttaagact tataatgtg gatatgcaa gtgccagat 
      tctgccgga actgccact gctctcttc acaggtgtt 
      aaaacccga tatgaagcg gtcggtgtt gatgttaat 
      tgcaataaa actattgcc gatcggacc gtttttgag 
      gccagcaaa cttgagggt atcatgact tgggcgcaa 
      caagccaac aaaagcact ggcattgtt accaccacc 
      agaataaca cacgctact cctgcctca acttacgcc 
      catgcccat tatcgggaa tgggagtgt gacagcgaa 
      atgccccaa gagttcaaa ccttttgtc aaagacatc 
      gccagacaa ctggtggag gacgcccct ggtaacaat 
      ttcaaggtc atactcggg ggaggttac cagcaaatg 
      ggccacatt ttcgaagat ctgagcgac ggtgaatgc 
      gtcagaaat gatactttg aatctcacg caaacatgg 
      attgatgat cacaaaggg cttaaggct tcgtttgtg 
      acaaataac caacaactg gagaatgtg ggtgatgtg 
      gattatctt ttggggctt ttttacccc gaccatctc 
      ccgtacgaa ttgttgcgt aacaaaggg ctcgacgga 
      accccgagt ctctcccaa atgaccaaa aaaggtcta 
      gatattttg caaaagaac cccaatggg tttgtccta 
      atggttgaa ggcggtcgt atcgaccac ggccaccac 
      gacaattac gcccgacta gcactggag gaagcatca 
      gagtttgag aaaactgtg gccctaatt gtggaaacc 
      tgcggccct gagactcta attctggtg accgcggac 
      cattcgcac gccatgaca ctgaacggt tacagccgg 
      cgcggaaat gacatttta ggatatggg cttgagacg 
      gaagatgac aaaccggcc ctcacttta acctacgcc 
      aacgggccg ggattcgcc taccacttt tcccccaac 
      gtttcgacg gttttgggc ccttggcgt gatgtcaga 
      gaggattgg aaccgtctg aataacccg aaatatcaa 
      cagatggcg agttttgag ctcgatgat gagacgcat 
      gggggcgaa gatgttgct atttttggg acagggccc 
      ggctcgcat cttgtccgg ggagtggtt gagcaaaac 
      tatgtcgca catttgatc agctatgcg gcttgtatc 
      gggcctagg gccggaatt aacccgcgg tgtgcgaaa 
      aatctggac gtttcactt gtcggcaat ttttattta 
      ctgttttcg atgctgttt ttcttaaat aaattataa 
      ttataactt atttaaata aaaatagtt atgaata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY