Status
Please wait ...
Gene information
General information
TC000247 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: 14194693..14196601
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
    TC000247
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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
    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00051

    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: 60.0% (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)

    pupation - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    remarks: later than schedule, hours 24 remarks: animals lost,
    Pupal morphology
    remarks: later than schedule, hours 24
    Adult morphology
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000247 RA
      MFLKKSPIL LLVLFSYAS AQGKTKDEL IKDLYGTND 
      NSTPENKPV TNRTPNLQP DTSGGIPGT GSCTCVPYY 
      LCSNGSVNT NGEGIIDIR INEGPCENY IDVCCEKGN 
      EVEQPITPT PPPIKRTGC GHHNPDGIG FRITGNTEN 
      EASYGEFPW MVAVLREET IEGNPQKLN VYQCGGALI 
      HTQVVVTAA HCVTGKKQF KIRAGEWDT QTKKELYPH 
      QDREVESVV IHPEFYAGA LYNDVALLF LKTPVDIAD 
      NVNVVCLPP EGANVDHAR CYASGWGKD VFGKEGRYQ 
      VILKKIDLP VVPRDKCQE ALRKTRLGK HFELHKSFI 
      CAGGEPKKD TCKGDGGSP LVCPIPGQS EKYQQAGIV 
      AWGIGCGEN NTPGVYVNL ALFRKWIDK EMKLKNFDT 
      SVYEY
    CDS sequence
    • >TC000247 RA
      atgttttta aaaaaatca cccattctc ctgctcgta 
      cttttttcg tatgctagt gcccaggga aagactaaa 
      gatgagtta attaaagac ttgtacgga acgaatgat 
      aacagcacc ccggaaaat aagcccgta acgaatcgg 
      accccaaac ttgcaaccc gacacaagt gggggaatt 
      cccgggacg ggttcctgc acctgcgtc ccttactac 
      ctctgcagc aacggctcg gtgaacacg aacggagag 
      ggaattatt gacataaga atcaatgaa ggcccctgt 
      gagaactac atcgacgtg tgctgcgag aagggcaac 
      gaggtggag cagcccatc acccccacg cccccgccc 
      atcaagcgc accggctgc ggccaccac aacccggac 
      ggcatcggc ttccggata accggaaac acggaaaac 
      gaggcctcg tacggggag ttcccctgg atggtggcc 
      gtcctccgg gaggagacc atcgaggga aacccccaa 
      aagctcaac gtctaccag tgcggtggc gccctcatc 
      cacacccaa gtggtggtc accgccgcc cactgcgtc 
      accggaaaa aaacagttc aagatccgg gccggcgag 
      tgggacact cagaccaag aaagagctc tacccccat 
      caagaccgc gaggtggag tccgtggtg atccacccg 
      gagttctac gcgggggcc ttgtacaac gacgttgcg 
      ttgttgttt ctcaaaact ccggtcgat atcgccgat 
      aatgtcaac gttgtgtgc ttgcccccg gaaggggca 
      aacgtggac cacgccagg tgctatgcc agtggctgg 
      gggaaggac gtgttcggg aaggaaggg cggtaccag 
      gtgatcttg aaaaaaatt gacttgccg gtggttccc 
      cgggacaag tgccaggaa gcgttgagg aaaacgcgg 
      ctagggaaa cacttcgag ttgcacaaa agcttcatc 
      tgcgccggg ggcgagccc aagaaagac acttgcaag 
      ggggacggc gggagtccg ctcgtttgc ccgattccg 
      ggccaaagt gagaagtac caacaagcc ggaatcgtt 
      gcctggggc attgggtgc ggggagaac aacacgccc 
      ggagtttac gtcaattta gcgctcttc agaaagtgg 
      atagacaag gaaatgaag cttaagaac ttcgacact 
      tcggtttac gaatattaa
    mRNA sequence
    • >TC000247 RA
      taacccagg ttcgaatcc tggtcacgg caatgtgca 
      agcattgtc acggtggga ctttttttt cgctttttt 
      tcttcactg ttggcctcg aaaccacaa accagtatt 
      tttgggcca aaatatgtc ggaaaaaaa tattacggc 
      cataatttt ttttcgccg ttttgaaat agccaaaaa 
      ccccttcca ctcgtgttg ctgatgata aagttgcaa 
      ctgttaatc aaccactca tttgcttcg gatgttcga 
      atcgcgctg cttgtctga cgtcacgat aaatccact 
      tggttcaag gtgctccgg gtaaaacct ggcagtgtt 
      ggttgaaca gattatttc gtgtggtca tctcaattc 
      tcaggccga agaatgttt ttaaaaaaa tcacccatt 
      ctcctgctc gtacttttt tcgtatgct agtgcccag 
      ggaaagact aaagatgag ttaattaaa gacttgtac 
      ggaacgaat gataacagc accccggaa aataagccc 
      gtaacgaat cggacccca aacttgcaa cccgacaca 
      agtggggga attcccggg acgggttcc tgcacctgc 
      gtcccttac tacctctgc agcaacggc tcggtgaac 
      acgaacgga gagggaatt attgacata agaatcaat 
      gaaggcccc tgtgagaac tacatcgac gtgtgctgc 
      gagaagggc aacgaggtg gagcagccc atcaccccc 
      acgcccccg cccatcaag cgcaccggc tgcggccac 
      cacaacccg gacggcatc ggcttccgg ataaccgga 
      aacacggaa aacgaggcc tcgtacggg gagttcccc 
      tggatggtg gccgtcctc cgggaggag accatcgag 
      ggaaacccc caaaagctc aacgtctac cagtgcggt 
      ggcgccctc atccacacc caagtggtg gtcaccgcc 
      gcccactgc gtcaccgga aaaaaacag ttcaagatc 
      cgggccggc gagtgggac actcagacc aagaaagag 
      ctctacccc catcaagac cgcgaggtg gagtccgtg 
      gtgatccac ccggagttc tacgcgggg gccttgtac 
      aacgacgtt gcgttgttg tttctcaaa actccggtc 
      gatatcgcc gataatgtc aacgttgtg tgcttgccc 
      ccggaaggg gcaaacgtg gaccacgcc aggtgctat 
      gccagtggc tgggggaag gacgtgttc gggaaggaa 
      gggcggtac caggtgatc ttgaaaaaa attgacttg 
      ccggtggtt ccccgggac aagtgccag gaagcgttg 
      aggaaaacg cggctaggg aaacacttc gagttgcac 
      aaaagcttc atctgcgcc gggggcgag cccaagaaa 
      gacacttgc aagggggac ggcgggagt ccgctcgtt 
      tgcccgatt ccgggccaa agtgagaag taccaacaa 
      gccggaatc gttgcctgg ggcattggg tgcggggag 
      aacaacacg cccggagtt tacgtcaat ttagcgctc 
      ttcagaaag tggatagac aaggaaatg aagcttaag 
      aacttcgac acttcggtt tacgaatat taaatactc 
      ttgtatcgt cttcaataa ataaagtat tttgtaaga 
      g
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY