Status
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Gene information
General information
TC013872 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_007420.3: 2625157..2628167
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
    TC013872
    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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    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_05515

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    Fertility
    ovary size decreased - Number of animals showing the phenotype: 3

    previtellogenic egg chamber not present - Number of animals showing the phenotype: 3

    vitellogenic egg chamber late not present - Number of animals showing the phenotype: 3

    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: 33.33% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013872 RA
      MLPKIYRSD PDIRKHQIN TLKIFNDNV VEICEGHEY 
      QISFKSDRH ELCLHISLS NEFPNEKPL LTISPPIVH 
      PWVNADSEV TSAPGLLNF SIHSDLGRV VQAIIREFE 
      RNPPPLKND SNNITPGPG STITSPTVP IRECERSSP 
      SYCAVNNFS SPTHQKRLV FPELKKLSM DELEFLNNN 
      SDRQLEFLN DLPPIKEQN KLLDDLIVQ VEELAESNL 
      SKQEQLSEL RSEIEQKIG EVTKLAFEN ERLHMKYQD 
      MSDKYSPFN IKEQLRLAA EKAESECES IADGFLKGE 
      VDVDKFVNL YTKARSLCQ ARKTKEEKL SHQLESLSK 
      AGF
    CDS sequence
    • >TC013872 RA
      atgcttccg aaaatatac agaagtgac cccgacatt 
      agaaaacat caaataaat actttaaaa atctttaac 
      gataacgtt gtcgaaatt tgcgagggt cacgaatac 
      caaatttcc ttcaagtcg gacagacac gagctttgc 
      ttacacatt tcactcagt aacgaattt cccaatgaa 
      aaacctttg ttaactatc tctccaccc atagtccac 
      ccttgggtg aacgccgac agtgaagtt acttcagcc 
      cctgggctt ttaaatttt tctattcat tccgacctg 
      ggacgtgtc gttcaggca ataattcgg gaatttgag 
      cgcaatcct cccccttta aaaaatgac tcaaataat 
      attacacct ggacctggg agtaccatt acgtcgcca 
      actgtacca atcagagaa tgtgaaagg tcgagtccc 
      agttattgt gcagtgaac aatttttcc tcgccaact 
      caccagaag agattggtt tttccagaa ctcaaaaaa 
      ctatcaatg gatgaatta gaattttta aataataat 
      tcagacagg cagctagaa tttttaaat gatttaccg 
      ccgattaaa gaacaaaac aagttgctt gatgatttg 
      attgtgcaa gtggaggag ttggctgaa tcaaattta 
      tcaaaacag gaacagtta agtgaattg aggtcggaa 
      attgagcag aaaataggc gaagtcacg aaattggcc 
      tttgagaac gagaggctt cacatgaaa tatcaggac 
      atgtctgat aaatattcc ccattcaat ataaaagaa 
      cagttgagg ctagcggct gaaaaagcc gagtcagag 
      tgtgaaagt attgctgat ggtttcctg aaaggtgaa 
      gtagatgtt gataagttc gtaaatctg tacaccaaa 
      gccagaagc ttatgccag gccaggaaa actaaagaa 
      gagaagctc tcccaccaa cttgagagt ttatcaaaa 
      gcgggtttt tag
    mRNA sequence
    • >TC013872 RA
      ttctttcaa ataacgcat ggctagcgc cattcgttt 
      tttgaaaat aaattcttg cttcaaaac tggtcttat 
      gcagatgga acttaatcc aaacaaaga gttattttt 
      attaatgta tgtgttacc tttaatatt tacatgtgc 
      gtattaaca aacttgcca actaagaac agaaatgtg 
      ggcaatcct agttataat aattcactg tgttattgt 
      atgcaatca acgatttta ttttattta aagaaaagc 
      attaaagtt tgctatttt tacacattc ccatacgaa 
      attagattt gtcttcaga ggcttactc taaattatt 
      tattttaat ttatttggt caaagaata atcattaat 
      cagtttata tttttattg tgtgatgtc ggactcaca 
      gtcctctga aggcgatag taatagttt gtaatttaa 
      ttacgacat cggttgtga tttccgcaa aaaataatt 
      ttcttttcc ttcactaaa ccatgtcca taagtgtgt 
      aagcattac catgttaat aacatttta aactttaag 
      tgctagtag gtttaaacc gatgtaaca acataatgt 
      aagttttta actttattc aaatacatt tttttatat 
      acatttgtc tacattact ttatttaca cacaattaa 
      aaatccgtt actcttcct ttcctctcc caatcccca 
      tatctggta ggttctggc ccgcgaggg ccccctact 
      tctccagtc gtagggttt gtgttgtca ggccaggct 
      tctaaaggt tctttttcc tggtgggga tgtttcccg 
      gatatttca tcaagtttt tcaagaggg gttgtttct 
      ctcaatttt ttcctaaac tcctggaga cggcgacta 
      gggggcttt tcctgtttt gaggtcgac gacagtctc 
      ataaaaact gcacaagtc tgtctcaag gggttgagg 
      tgacaaagt ccacttaat cttaaagtc atgatcagg 
      aatttgcga aagtagcca aattcgaca taaaattgt 
      tgcaaatct gtgacctgt cttaattga cactattta 
      aaactgatt tattatttt ttcgatttt gaaaatcgc 
      ttgacctaa cctcaactg tcaacgtga caattcaac 
      tgtcagaag aggttaggt tattgtcaa gatttctca 
      atttcgaga aaatttaat aatttaacg ctctgattg 
      cattgaaac ttttgagtg cagtaaagt gacaatcaa 
      tacgaaaaa aatattgaa gaaatgctt ccgaaaata 
      tacagaagt gaccccgac attagaaaa catcaaata 
      aatacttta aaaatcttt aacgataac gttgtcgaa 
      atttgcgag ggtcacgaa taccaaatt tccttcaag 
      tcggacaga cacgagctt tgcttacac atttcactc 
      agtaacgaa tttcccaat gaaaaacct ttgttaact 
      atctctcca cccatagtc cacccttgg gtgaacgcc 
      gacagtgaa gttacttca gcccctggg cttttaaat 
      ttttctatt cattccgac ctgggacgt gtcgttcag 
      gcaataatt cgggaattt gagcgcaat cctccccct 
      ttaaaaaat gactcaaat aatattaca cctggacct 
      gggagtacc attacgtcg ccaactgta ccaatcaga 
      gaatgtgaa aggtcgagt cccagttat tgtgcagtg 
      aacaatttt tcctcgcca actcaccag aagagattg 
      gtttttcca gaactcaaa aaactatca atggatgaa 
      ttagaattt ttaaataat aattcagac aggcagcta 
      gaattttta aatgattta ccgccgatt aaagaacaa 
      aacaagttg cttgatgat ttgattgtg caagtggag 
      gagttggct gaatcaaat ttatcaaaa caggaacag 
      ttaagtgaa ttgaggtcg gaaattgag cagaaaata 
      ggcgaagtc acgaaattg gcctttgag aacgagagg 
      cttcacatg aaatatcag gacatgtct gataaatat 
      tccccattc aatataaaa gaacagttg aggctagcg 
      gctgaaaaa gccgagtca gagtgtgaa agtattgct 
      gatggtttc ctgaaaggt gaagtagat gttgataag 
      ttcgtaaat ctgtacacc aaagccaga agcttatgc 
      caggccagg aaaactaaa gaagagaag ctctcccac 
      caacttgag agtttatca aaagcgggt ttttagttg 
      tgataattt atttataat tttaactct gaatacata 
      tatttgtac taa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY