Status
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Gene information
General information
TC011417 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_007425.3: 5457099..5459195
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
    TC011417
    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
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07065

    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: 10.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011417 RA
      MFDVFGSVK GLLKIDVVC IDNNVFRLH YKATVIILI 
      AFSLLVTSR QYIGDPIDC IVDEIPLNV MDTYCWIYS 
      TFTIPNRLT GRVGLDIVQ PGVASHLDG TDEVKYHKY 
      YQWVCFALF FQAMLFYVP RYLWKTWEG GRIKMLVLD 
      LNYPIVSED CKTDRKRLL VDYFITNLH MQNFYAFRF 
      FICEVLNFV NVVGQIFFM DYFLDGEFS TYGRDVLSF 
      TEMEPEERE DPMSRVFPK VTKCTFHKY GPSGSVQKF 
      DGLCVLPLN IVNEKIYVF LWFWFVFLS VLSGLSLIY 
      RLVVIFMPK VRLYLLRGK CKIAPQKEV EIINTRCEI 
      GDWYVLYQM GKNIDPLIF REIISDLSK KLEGKETV
    CDS sequence
    • >TC011417 RA
      atgtttgac gtcttcggc tccgtcaag gggctcctc 
      aagatcgat gtggtgtgc atcgacaac aacgtcttc 
      cgtctgcac tacaaagcc accgtcatc atcctcata 
      gccttctcg ctcctggtg acgagtcgc cagtacatc 
      ggcgacccc atcgactgc atcgtggac gagatcccc 
      ctgaacgtg atggacacc tactgctgg atctactcc 
      actttcacc atccccaac cgactcacc gggcgcgtg 
      ggcctggac atcgtccag cccggcgtc gccagccac 
      ctggacggc accgacgag gtcaagtac cacaagtac 
      taccagtgg gtctgcttc gccctcttc ttccaagcc 
      atgctgttc tacgtgccg cggtacctc tggaagacg 
      tgggaaggc gggcgcatc aagatgctg gtcctggac 
      ctgaactac cccatcgtc agcgaggac tgcaagacg 
      gacaggaag cgcctcctc gtcgactac ttcatcacc 
      aacttgcac atgcagaac ttctacgcc ttccggttc 
      ttcatctgc gaggtgctc aacttcgtc aacgtggtg 
      gggcagatc ttcttcatg gactacttc ctcgacggg 
      gagttcagc acctacgga cgcgacgtc ctcagcttc 
      accgagatg gagccggag gagcgcgag gacccgatg 
      tcccgggtc ttccccaaa gtcaccaag tgcacgttc 
      cacaagtac ggcccttcg ggttccgtc cagaagttc 
      gacgggttg tgcgtcctc cccctcaac atcgtcaac 
      gagaagatc tacgtcttc ctctggttc tggttcgtg 
      ttcctcagc gtgctgtcg ggcctgtcc ttgatctac 
      cggctggtg gtcatcttc atgcccaaa gtcaggctg 
      tacttgctg aggggcaaa tgcaagatc gcgccgcag 
      aaggaggtg gagatcatc aacacgcgg tgcgagatc 
      ggggattgg tacgtcctg taccagatg ggcaagaac 
      atcgacccg ctgatcttc cgggagatc atttcggac 
      ctctcgaag aagctcgag gggaaagag actgtctaa
    mRNA sequence
    • >TC011417 RA
      gttctcgta gtagcgctc gcagcgtac acataaatg 
      cacagtaga aagtgccac caacaatta acctcttaa 
      ttaaaagcc ctcgtaaaa aattcgcca gtgctagtg 
      ttaggtacc gccgtccgc catgtttga cgtcttcgg 
      ctccgtcaa ggggctcct caagatcga tgtggtgtg 
      catcgacaa caacgtctt ccgtctgca ctacaaagc 
      caccgtcat catcctcat agccttctc gctcctggt 
      gacgagtcg ccagtacat cggcgaccc catcgactg 
      catcgtgga cgagatccc cctgaacgt gatggacac 
      ctactgctg gatctactc cactttcac catccccaa 
      ccgactcac cgggcgcgt gggcctgga catcgtcca 
      gcccggcgt cgccagcca cctggacgg caccgacga 
      ggtcaagta ccacaagta ctaccagtg ggtctgctt 
      cgccctctt cttccaagc catgctgtt ctacgtgcc 
      gcggtacct ctggaagac gtgggaagg cgggcgcat 
      caagatgct ggtcctgga cctgaacta ccccatcgt 
      cagcgagga ctgcaagac ggacaggaa gcgcctcct 
      cgtcgacta cttcatcac caacttgca catgcagaa 
      cttctacgc cttccggtt cttcatctg cgaggtgct 
      caacttcgt caacgtggt ggggcagat cttcttcat 
      ggactactt cctcgacgg ggagttcag cacctacgg 
      acgcgacgt cctcagctt caccgagat ggagccgga 
      ggagcgcga ggacccgat gtcccgggt cttccccaa 
      agtcaccaa gtgcacgtt ccacaagta cggcccttc 
      gggttccgt ccagaagtt cgacgggtt gtgcgtcct 
      ccccctcaa catcgtcaa cgagaagat ctacgtctt 
      cctctggtt ctggttcgt gttcctcag cgtgctgtc 
      gggcctgtc cttgatcta ccggctggt ggtcatctt 
      catgcccaa agtcaggct gtacttgct gaggggcaa 
      atgcaagat cgcgccgca gaaggaggt ggagatcat 
      caacacgcg gtgcgagat cggggattg gtacgtcct 
      gtaccagat gggcaagaa catcgaccc gctgatctt 
      ccgggagat catttcgga cctctcgaa gaagctcga 
      ggggaaaga gactgtcta agtgcctta cgaacagtt 
      gtttttgat gaccgattt acctgctgc acaaggtga 
      ctcacgaca ttcctgtga tgacagaaa aagactgtg 
      cgacggccg aaaaggctg tgatattat catttcttc 
      gcttttaag ctcaagcat tcccgatac tcttctcaa 
      caaacaagc cggagacgt tttcgctgg ctgtgccgg 
      atttctgat gcaagtgca gcgggcgaa atcgcattc 
      tctgtgata aatctctat tgctcggtt ttatatcac 
      ttagcgtgt aattattaa ttaatcgaa taatttaaa 
      tcgtatgtg atttaggat taggtttag cttccatac 
      atgtgtgaa cagttccag cgaaaatta tcatgtgtt 
      caaattatt gtataaata caccgagag tgcctaatt 
      ttttatttg tatggaatt gacgaaata aattagcta 
      ttttaaatt acaactgct ttcatttca ccacgtgcc 
      gaccgactg acacttgtt gattcgcca gaagttgaa 
      attcgttcc aagaaggtg gctatcgct ggtacctgg 
      acccttttt tctataaat agagttttt cgtttacta 
      ctcacttac tactctaac caattaagt aatgaatgg 
      cgtggcgct actattttt acgccgcct ataaataca 
      ctcattgtt ttaaattcg gcctgttta caactacaa 
      ctgtagaaa taatcaaag gagtttcaa atcgtgtaa 
      ataaatacg aatggaaac aaatgacgc cgcttccga 
      cgtaataac ataacagag atatccatt tccttgaaa 
      atgtcaaga attcggttt gtggtttca taaattttc 
      attcatgtg agaattatg ttctataaa taattcgat 
      tgtcacgtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY