Status
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Gene information
General information
TC012096 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_007424.3: 5952908..5973433
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
    TC012096
    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
    {{ goGene }}
    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
    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
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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05168

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012096 RA
      MHIEVQVAL NFVISYLYN KLPRRRVNI FGEELEKAL 
      KDKFQGHWY PEKPFKGSA FRCLKTGDP IDKVLERAA 
      RESGVPIQD ILENLPQEL AVWVDPGEV SYRIGEKGA 
      VKVLFSDKS DPQDENSAD REVTKTFNP EAQCFRPIE 
      SVSCSLSNL SLSPKSITP FAAAGQSAA VGAQLAPVA 
      PTQPNQPIT STINHLTSP SAAPSPTSL GNSYKGSPS 
      PVPAFIPRT TTPLTFTTA TFAQTKFGS TKLKTSSKR 
      ANRMSPTEF SNYIKQRAM QQQLHQQPP HHSPSGRAL 
      SPDPSAYYF PHGPYGPQF PHRSMFESS NQFLSPDLY 
      SGKLPFEHS PLGPYYPNG GAVGAPPSA PATPQDSGK 
      LVDNWPYPT TGQYQHLLV AN
    CDS sequence
    • >TC012096 RA
      atgcatata gaagtacaa gtcgctttg aatttcgta 
      atatcgtac ctgtacaac aaacttccc cgccgacga 
      gtgaacatc ttcggcgaa gagctggag aaagcttta 
      aaagacaaa ttccaaggc cactggtac ccggagaag 
      ccgttcaag gggtcggcg ttccggtgc ctgaagacc 
      ggggacccc atcgacaag gtgctggag cgcgcggcc 
      cgcgagagc ggcgtgccc atccaggac atcctggag 
      aacctgccc caggagctg gccgtgtgg gtggacccc 
      ggcgaggtg agctaccgc atcggcgag aagggcgcc 
      gtcaaggtg ctcttcagc gacaagagc gacccccag 
      gacgagaac tccgccgac cgcgaggtc accaagacc 
      ttcaacccc gaggcgcag tgcttcagg cccatcgag 
      tccgtcagc tgcagtctg agcaacctg agcctctcc 
      cccaagtcc atcacgccc ttcgccgcc gccggccag 
      tcggccgcc gtgggcgcg cagctggcc cccgtcgcc 
      cccacgcag cccaaccag cccatcacc tccaccatc 
      aaccacttg acttcgccc tcggcagca ccttcgccc 
      acttcgctc gggaactcg tacaaaggg tcgccttcg 
      ccggtcccg gccttcata cccaggacc accacgcca 
      ctcaccttc accacagcc acctttgct caaaccaag 
      ttcggaagc accaaactc aagaccagc agcaaaaga 
      gccaatcga atgtctcca accgaattc tccaattac 
      atcaagcag cgcgccatg cagcagcag ctccaccag 
      cagccccct caccattca ccgagcggt cgcgccctg 
      tcgcccgac ccctccgct tactacttc ccgcacggc 
      ccctacggc ccgcagttc ccccatcgt tccatgttc 
      gagtcttcc aaccagttc ctgagcccc gacctgtac 
      tccggcaag ctgccgttc gagcactcg cccctgggc 
      ccctactac cccaacggc ggggccgtg ggggcgccg 
      ccctccgcg cccgccacc ccccaggac agcggcaag 
      ctggtcgac aactggccc taccccacc accggccag 
      taccagcac ctcctggtg gccaactga
    mRNA sequence
    • >TC012096 RA
      ccaaaggaa taaaaatct caacttttc tccaaccac 
      cacttttcc caatctccc tgtcgttcg gagcccatc 
      agccgcttt tcccggata actcaaacc gacgtctcc 
      gccagcggc gccccctgc tagatgtcg ctggggttg 
      tttttaaat aggtctccc ggggtaatg tgcggaaga 
      tttgtgcac cgatgacgc aacagccga ccgggacgc 
      cgtggaact aaacaaacc gttaccgtg gcaacaaat 
      ctgtgacgt cactggtga cgtccgccg gtatagcga 
      gaaccgagt tatatatcg acgacggtg gaaatcttc 
      gtcattgtg ctgcgccga gcgcgaacg cgagtgcta 
      ctaagtgat cctactagt ccacaactt ttatatttt 
      tctactttt atatctgat atttgtata gtttgttta 
      ttttattac ttagaagtt atattttct catcgtttt 
      atacgcttc tgatcacgt accttaatt tctgaaagc 
      aagaaaaat aacggaacg ttgtaaaaa tttctagta 
      gagtgaaat aaaatcaat gttttatta agtcctact 
      cgaccgaag aaacgaaac agagaatcc tcacacaat 
      gcatataga agtacaagt cgctttgaa tttcgtaat 
      atcgtacct gtacaacaa acttccccg ccgacgagt 
      gaacatctt cggcgaaga gctggagaa agctttaaa 
      agacaaatt ccaaggcca ctggtaccc ggagaagcc 
      gttcaaggg gtcggcgtt ccggtgcct gaagaccgg 
      ggaccccat cgacaaggt gctggagcg cgcggcccg 
      cgagagcgg cgtgcccat ccaggacat cctggagaa 
      cctgcccca ggagctggc cgtgtgggt ggaccccgg 
      cgaggtgag ctaccgcat cggcgagaa gggcgccgt 
      caaggtgct cttcagcga caagagcga cccccagga 
      cgagaactc cgccgaccg cgaggtcac caagacctt 
      caaccccga ggcgcagtg cttcaggcc catcgagtc 
      cgtcagctg cagtctgag caacctgag cctctcccc 
      caagtccat cacgccctt cgccgccgc cggccagtc 
      ggccgccgt gggcgcgca gctggcccc cgtcgcccc 
      cacgcagcc caaccagcc catcacctc caccatcaa 
      ccacttgac ttcgccctc ggcagcacc ttcgcccac 
      ttcgctcgg gaactcgta caaagggtc gccttcgcc 
      ggtcccggc cttcatacc caggaccac cacgccact 
      caccttcac cacagccac ctttgctca aaccaagtt 
      cggaagcac caaactcaa gaccagcag caaaagagc 
      caatcgaat gtctccaac cgaattctc caattacat 
      caagcagcg cgccatgca gcagcagct ccaccagca 
      gccccctca ccattcacc gagcggtcg cgccctgtc 
      gcccgaccc ctccgctta ctacttccc gcacggccc 
      ctacggccc gcagttccc ccatcgttc catgttcga 
      gtcttccaa ccagttcct gagccccga cctgtactc 
      cggcaagct gccgttcga gcactcgcc cctgggccc 
      ctactaccc caacggcgg ggccgtggg ggcgccgcc 
      ctccgcgcc cgccacccc ccaggacag cggcaagct 
      ggtcgacaa ctggcccta ccccaccac cggccagta 
      ccagcacct cctggtggc caactgagg gtcctccta 
      gacgcttcg ggttacctg ctgttactt aagcggcgg 
      cgccccgcg cggccccta gcccggggg ccccgcctc 
      tgcacccct aggaataat cataaatta ttaatctta 
      tatattata agagaaaga tcccagctt gatacttga 
      tagattttt ttataaatc gtagcgtag cgtaattag 
      atgtttctt actttatat aaatggtgt ttacagtat 
      tcttgtaga gtagagtgt tttctaaat tttttatat 
      tgtatgtat ttttttatt tttgtatga aaagctcaa 
      gctgacatc tagtcccag aaattcatg tataatgta 
      ttcaataag tgttggcat atcatatcg ggtcctaca 
      aaccaggag ttttctcag ttttgtgct cgtttcacg 
      ccgccgcgg tccgcattt gtggccgcg aactgcagg 
      ttcgaccgc ggtccaagc atacttcac ttgaccaaa 
      gtccctaga ttggcgcaa taatgtgat ctgttctca 
      aaaattgtg atagcggga attgtgacg cgggtcgtc 
      gtgtgaagc gtgctttag gacgaaatc cgttcagta 
      ttgcatgct gcagcccaa gttttgatg tgggtccta 
      gatgcttcc tttattctc aaatttaaa cgagataaa 
      ttgttacta ttttgtact gcttgtttt tttgtgttt 
      ttttatttc cactgatgt ttattttta tttgtataa 
      attgttgaa gttaataat aatatatat tttgttatg 
      ag
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