Status
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Gene information
General information
TC011950 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: 11042930..11045963
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
    TC011950
    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_06481

    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: 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
    • >TC011950 RA
      MNIPNGNRC SNKLTNGNS NIPLRRPSL NRPHSTTPP 
      PSPSRIPVN NPEAQKWKL KYEDTEQKR KSILSEKEK 
      IARQYNDLQ RKNLDLQLK NEQLETELF EKNEQYSKL 
      SEASKSVYK EYEKLKHRY ETETTAMSS ALQDASNWY 
      KENKALKRK TMLLLDTDT VDEGVDAGE STGDSDIEN 
      LNKTIKQLS SEIAELQTE VDTLKHVEF TTTEQNIKL 
      SEELEFEKE KNKKLEHDF HELKKQYEQ IIRVSEMMK 
      NELTHLKEV EEKQRNSVV ILRREADDY KKERNVLAH 
      QSTLLLEGL GSENQDNFM VLLQDVEQM KRTLEEERN 
      RHEEEVSSL QEKLEMAEK NSQVEVLEE RLKLAEAEL 
      QEALERAER AEEALKRPP APPPPPPPA LFSEPPTVP 
      LRVKRRSKV NIAELADVI GVKEPAVPD CKKVTGVND 
      DIINTIKSG KFTLKKVKN DNKKEREGT KAVSELLNI 
      LGSLRKAPK SRQSLSNGD VAL
    CDS sequence
    • >TC011950 RA
      atgaatata ccaaacggc aatagatgt tcgaataag 
      ctgactaat ggcaattca aacattccg ttacggagg 
      ccctcgctg aatcggccg cattcgacg acaccgcca 
      ccgtcgccc tcccgaatt ccggtgaat aatccggag 
      gctcaaaaa tggaaactg aagtacgaa gacacggag 
      caaaaacgt aaaagtatc ctcagcgag aaggaaaaa 
      attgcgaga cagtataat gatttgcaa cgaaaaaac 
      ctggacctc caactcaaa aacgaacag ttggaaaca 
      gaattgttt gaaaaaaac gaacagtat tcaaaacta 
      tcggaagct tcgaaaagc gtgtacaaa gagtacgaa 
      aagttgaaa caccgatat gaaacggaa actacggca 
      atgtcgagc gcccttcaa gacgcctca aactggtac 
      aaagaaaac aaagccctg aagcgaaaa acaatgctt 
      ctcttggac acggacacg gttgacgaa ggtgtggac 
      gctggtgag tcgaccgga gactccgac atcgaaaat 
      ttgaacaaa accatcaaa caattgagt tcggaaatt 
      gcggaattg caaaccgaa gtcgatact ttgaagcac 
      gtcgagttc acaaccact gagcaaaac ataaaacta 
      tccgaggag ttggagttt gagaaagag aaaaacaag 
      aaactggag cacgatttc cacgagctg aaaaaacag 
      tacgagcag ataatccga gtttcggaa atgatgaaa 
      aacgagctg actcacttg aaagaggtg gaggagaag 
      caacgaaac agtgttgtg attttgaga cgcgaagct 
      gatgattat aagaaagaa cgaaacgtt ctggcacac 
      caaagtacg ctgctgctc gaagggctg gggagcgag 
      aaccaggac aacttcatg gtcctgctc caggacgtg 
      gagcagatg aagcggact ctggaggag gagcggaac 
      cgccacgaa gaggaggtg agctcgctc caggagaaa 
      ctggagatg gctgagaag aattcgcaa gttgaagtg 
      cttgaagaa cggctgaag ctggccgag gccgagctg 
      caggaggcg ctggaacgg gcggaaagg gccgaggag 
      gcgctcaag aggccaccg gcgccgccg ccgccaccg 
      ccaccggcg ctctttagc gaacccccg accgttccc 
      ttgagggtg aaacggagg tcgaaggtc aatattgcc 
      gaacttgcg gatgtgatc ggggttaaa gaaccggcg 
      gtccctgat tgcaaaaag gtaacgggg gttaatgac 
      gatattatc aatacgata aagtcgggg aaatttacc 
      ctgaaaaag gtcaaaaac gataacaag aaggaacgc 
      gaggggact aaggccgtg tccgagctt ttgaacatc 
      ttgggaagt ttgcggaaa gcgccgaaa agtcggcaa 
      agtttgagt aatggggac gttgcattg tag
    mRNA sequence
    • >TC011950 RA
      acaaaacgg aaaagatat ctttagatt ttattctgt 
      tgtcggctt gtaactgtg aacggtgta gcaaagctc 
      gaggctact ataatgcgt ccaagccgg taaaaggac 
      acggtattg ctactttca ccatacacc tttttgcct 
      tttgtttac aacaaatac atgtcaagt gcacggtcc 
      cacctgttt cagcgacct aaggaaaaa ccgttacaa 
      catgaatat accaaacgg caatagatg ttcgaataa 
      gctgactaa tggcaattc aaacattcc gttacggag 
      gccctcgct gaatcggcc gcattcgac gacaccgcc 
      accgtcgcc ctcccgaat tccggtgaa taatccgga 
      ggctcaaaa atggaaact gaagtacga agacacgga 
      gcaaaaacg taaaagtat cctcagcga gaaggaaaa 
      aattgcgag acagtataa tgatttgca acgaaaaaa 
      cctggacct ccaactcaa aaacgaaca gttggaaac 
      agaattgtt tgaaaaaaa cgaacagta ttcaaaact 
      atcggaagc ttcgaaaag cgtgtacaa agagtacga 
      aaagttgaa acaccgata tgaaacgga aactacggc 
      aatgtcgag cgcccttca agacgcctc aaactggta 
      caaagaaaa caaagccct gaagcgaaa aacaatgct 
      tctcttgga cacggacac ggttgacga aggtgtgga 
      cgctggtga gtcgaccgg agactccga catcgaaaa 
      tttgaacaa aaccatcaa acaattgag ttcggaaat 
      tgcggaatt gcaaaccga agtcgatac tttgaagca 
      cgtcgagtt cacaaccac tgagcaaaa cataaaact 
      atccgagga gttggagtt tgagaaaga gaaaaacaa 
      gaaactgga gcacgattt ccacgagct gaaaaaaca 
      gtacgagca gataatccg agtttcgga aatgatgaa 
      aaacgagct gactcactt gaaagaggt ggaggagaa 
      gcaacgaaa cagtgttgt gattttgag acgcgaagc 
      tgatgatta taagaaaga acgaaacgt tctggcaca 
      ccaaagtac gctgctgct cgaagggct ggggagcga 
      gaaccagga caacttcat ggtcctgct ccaggacgt 
      ggagcagat gaagcggac tctggagga ggagcggaa 
      ccgccacga agaggaggt gagctcgct ccaggagaa 
      actggagat ggctgagaa gaattcgca agttgaagt 
      gcttgaaga acggctgaa gctggccga ggccgagct 
      gcaggaggc gctggaacg ggcggaaag ggccgagga 
      ggcgctcaa gaggccacc ggcgccgcc gccgccacc 
      gccaccggc gctctttag cgaaccccc gaccgttcc 
      cttgagggt gaaacggag gtcgaaggt caatattgc 
      cgaacttgc ggatgtgat cggggttaa agaaccggc 
      ggtccctga ttgcaaaaa ggtaacggg ggttaatga 
      cgatattat caatacgat aaagtcggg gaaatttac 
      cctgaaaaa ggtcaaaaa cgataacaa gaaggaacg 
      cgaggggac taaggccgt gtccgagct tttgaacat 
      cttgggaag tttgcggaa agcgccgaa aagtcggca 
      aagtttgag taatgggga cgttgcatt gtagtatga 
      tagtcatgt attatagct gccatattt ttgtatttt 
      ttatattgt tgttgaata aaagagttt atacaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY