Status
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Gene information
General information
TC008657 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_007422.5: 13719629..13723955
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
    TC008657
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04529

    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: 0.0% (includes death as pupa, adult)

    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008657 RA
      MRTILLLLL FSVDVFGFF WKFSRSSRH TRDDSFENT 
      AGRMFVTLL GYPPKCEQR GISHSCTLS FACWLVGGS 
      SQPGCGANP WIVACCVTS KKALNRNND VQQLQVRED 
      SLALPVLQK RIDDLEECG LSADRILMK RIIGGDEAK 
      FAQFPWQAF IKISSYQCG GVLVSRKFV ATAAHCIIT 
      ARLKDTLVY LGELDTQDT GKVKELEPA ELHRVRRRI 
      IHPNFQFRT TQPDRYDLA LLELITEAG YSYHISPIC 
      LPPSDMVLT GRTAVVAGW GKIQPSNEL MGTNVLRSA 
      TVPILDIRE CLAWHEIKQ ISVELHEEM LCAGHESGK 
      HDACLGDSG GPLIVLENG RWTLVGITS AGFGCGEPH 
      QPGIYHKIP VTADWIRSV IRLL
    CDS sequence
    • >TC008657 RA
      atgcgcacc atcctcttg ttgttgctc ttcagcgtt 
      gacgttttc ggctttttt tggaaattt tcgagaagc 
      agtcgacac actagagat gacagcttc gaaaacacc 
      gccggtaga atgtttgta acgctattg ggatatcct 
      ccgaaatgt gaacaaaga ggcatttcg cattcttgc 
      actttatcc ttcgcttgc tggctcgtg ggaggctcg 
      agccagcca ggctgtggg gccaatccc tggattgtc 
      gcctgctgt gtcacctcc aaaaaagca ctaaaccga 
      aacaatgac gttcagcaa ctccaggtg agagaggac 
      agtctagct ctgcccgtc ctgcaaaag cgcattgat 
      gatttggaa gaatgcggc ttatctgct gacagaata 
      ctaatgaaa cgtataatt ggaggcgac gaagcgaaa 
      tttgcacaa tttccatgg caagcgttc attaaaata 
      tcctcgtat caatgcggt ggcgtccta gtttcgcga 
      aaatttgtg gcaacggct gctcactgc atcatcaca 
      gcccggctt aaagacact ttggtttat ttaggagag 
      ctagataca caggacact ggcaaagta aaggaatta 
      gaaccggct gaattacac agggttcgc cgccgaata 
      atccacccc aatttccaa tttcgcacg actcagcct 
      gaccgatac gacctcgcc ctgctggaa ctaatcacc 
      gaagcgggc tattcgtac cacatctcc cccatctgc 
      ctccctccc agcgacatg gtcctgacc gggcgcacc 
      gccgtggtg gccggctgg ggcaagatc cagccctcc 
      aacgagctc atgggcacg aacgtcctt cgcagcgcc 
      accgtcccc atcctggac atccgcgag tgcttggcc 
      tggcacgag atcaagcag atttccgtc gagctgcac 
      gaggagatg ctgtgcgcc ggtcacgaa tccggaaaa 
      cacgacgcc tgtctgggc gactccggg gggccgctg 
      atcgtgctg gaaaacggg aggtggacg ctggtgggg 
      atcaccagc gccggcttc ggctgtgga gagccccac 
      cagcccgga atttatcat aaaatcccg gtgacagcc 
      gactggatt cgatctgtt attaggctg ttatag
    mRNA sequence
    • >TC008657 RA
      tactgttac acagttacg tctactccg actctcagc 
      aatgccgcg attcatttt taccgaaat gtcttgata 
      ttcgtttaa aacagtgct aacaccagt gtgccaaaa 
      attaaaaat gagtgagag atgcgcacc atcctcttg 
      ttgttgctc ttcagcgtt gacgttttc ggctttttt 
      tggaaattt tcgagaagc agtcgacac actagagat 
      gacagcttc gaaaacacc gccggtaga atgtttgta 
      acgctattg ggatatcct ccgaaatgt gaacaaaga 
      ggcatttcg cattcttgc actttatcc ttcgcttgc 
      tggctcgtg ggaggctcg agccagcca ggctgtggg 
      gccaatccc tggattgtc gcctgctgt gtcacctcc 
      aaaaaagca ctaaaccga aacaatgac gttcagcaa 
      ctccaggtg agagaggac agtctagct ctgcccgtc 
      ctgcaaaag cgcattgat gatttggaa gaatgcggc 
      ttatctgct gacagaata ctaatgaaa cgtataatt 
      ggaggcgac gaagcgaaa tttgcacaa tttccatgg 
      caagcgttc attaaaata tcctcgtat caatgcggt 
      ggcgtccta gtttcgcga aaatttgtg gcaacggct 
      gctcactgc atcatcaca gcccggctt aaagacact 
      ttggtttat ttaggagag ctagataca caggacact 
      ggcaaagta aaggaatta gaaccggct gaattacac 
      agggttcgc cgccgaata atccacccc aatttccaa 
      tttcgcacg actcagcct gaccgatac gacctcgcc 
      ctgctggaa ctaatcacc gaagcgggc tattcgtac 
      cacatctcc cccatctgc ctccctccc agcgacatg 
      gtcctgacc gggcgcacc gccgtggtg gccggctgg 
      ggcaagatc cagccctcc aacgagctc atgggcacg 
      aacgtcctt cgcagcgcc accgtcccc atcctggac 
      atccgcgag tgcttggcc tggcacgag atcaagcag 
      atttccgtc gagctgcac gaggagatg ctgtgcgcc 
      ggtcacgaa tccggaaaa cacgacgcc tgtctgggc 
      gactccggg gggccgctg atcgtgctg gaaaacggg 
      aggtggacg ctggtgggg atcaccagc gccggcttc 
      ggctgtgga gagccccac cagcccgga atttatcat 
      aaaatcccg gtgacagcc gactggatt cgatctgtt 
      attaggctg ttatagtga aatattgag atcggctgg 
      atttcgacg ttatggcct gtccggcgg cgcttcctg 
      aagattgat gggatttcg gggtctatt atattctag 
      tgagagcaa actttaccg tatggagat taaattgcc 
      gggcgaatt gaaattggc attatttca taattcata 
      ttaacgggt ctatattgt gtttattaa ttttaggag 
      caatttcgg cgatattta atatacgct tcaatgggc 
      tgtcaactc ttataactg ttcatgaaa atactcact 
      cagtaacgt aatttatgt tttattgta atatttaac 
      gcaaattta tttcatctg tttcatttg aataaaaaa 
      tgtgatatg ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY