Status
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Gene information
General information
TC001715 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_007416.3: 8135447..8140044
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
    TC001715
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00288

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC001715 RA
      MKLLLTFAT LHLALGASI VDVTCPESC TCRVQDELS 
      CSSYEFIKK LVPKQVSTI VHLNINNAS VITVDSKLK 
      YLKNLRSLD LSGNTITVL PSQFPYLPK LKSLNLSAN 
      YLSSVEFAQ LPKNLEVID LRHNVIENF PKDWGVLKE 
      LKSVYFGDN SINCDCDNL AVFEQLRNA GIVSENLTC 
      HYPKEFHGR SLDSVNCFL IKENLLNSM LGDEAGSGQ 
      DEFEAKELD EQEEFFKAE DIAHTSEDL TEGSGDEGS 
      GDTPIPIEP KACHFNCST ANPIGIHDE VNASPAPDL 
      KEGVVMLFE DVLQPEPET TTTTTTESP VTNLVHTGK 
      EEPTFVKES DKGEVETFP TNDTVLGEM ERASFENSN 
      TQSVYIVVG LVIALIAFL IVYYVNRKN QKRRNQRKR 
      NKSNENGCG EEMKPLGVK VPIEQINTK TNFESAPLL 
      NGNGKISDD VELRKTELS PQPERVTIK ASELPDSIP 
      KTPLLVHRQ VDSDGKIVT TAVNSN
    CDS sequence
    • >TC001715 RA
      atgaaattg ctattgacc ttcgccacg ttgcaccta 
      gctcttgga gcatcaatc gttgatgtg acgtgtccc 
      gaatcctgc acttgccga gttcaggac gaactttcc 
      tgtagctcg tacgagttc atcaaaaaa ctcgtcccg 
      aaacaagta tcaacaata gtgcatttg aacataaac 
      aacgcttca gtgatcacc gtcgactcc aagctgaag 
      tatttaaaa aatttgcgc tccctggat ttgtcaggc 
      aacacaatc accgtgttg ccatcacag tttccgtat 
      ttgccaaag ctgaagagt cttaacttg agcgcgaat 
      tacttgagc agtgtcgag tttgcgcaa cttccgaaa 
      aatttagaa gtgattgat ttgaggcat aatgtgatt 
      gagaatttc ccgaaggac tggggcgtt ttgaaagaa 
      ctgaaaagt gtttatttt ggcgacaat tccatcaat 
      tgtgattgt gacaatttg gcggttttt gaacaattg 
      cgaaacgct gggattgtt tcggaaaac ctgacgtgt 
      cactaccct aaagagttt cacggccgg tctttggac 
      tcagttaat tgtttcttg atcaaggaa aatttgttg 
      aattcgatg ttgggtgat gaggctggg tcaggtcaa 
      gacgagttt gaagccaaa gaactggac gaacaagaa 
      gaatttttc aaggcggaa gacatagct cacacgagc 
      gaagacctt actgaaggt agtggtgat gagggaagt 
      ggtgacact ccaattcca attgagcca aaagcttgc 
      cacttcaac tgttctact gccaatccg atcggaatc 
      cacgacgaa gtcaatgct tcgcctgct cccgacctg 
      aaggaagga gttgtgatg ctctttgaa gacgttctc 
      caaccggaa ccagaaacc accaccacc accaccacg 
      gaaagccca gtcacaaat ttagtacac acgggaaaa 
      gaagaacca actttcgtc aaagagtcc gacaaaggt 
      gaagtcgaa acgttccca actaacgat accgttttg 
      ggcgaaatg gaacgagcg agtttcgaa aattcgaac 
      acccagtct gtgtacata gtagtaggg cttgtaata 
      gccctgatt gccttcctg atcgtttac tacgtgaat 
      cggaagaac cagaagcgg aggaatcag cggaaacgc 
      aacaaatcg aacgaaaac ggctgtggg gaagaaatg 
      aaaccgcta ggtgtgaaa gttccgatt gagcaaatc 
      aacaccaag accaacttt gaatctgcg cctttgttg 
      aacggcaac ggcaaaatt agcgatgat gttgagttg 
      cgtaaaact gaattatcg ccccagccg gaacgagtg 
      acgatcaaa gcgtcagaa ctacccgat tcgattccg 
      aaaacgccg cttcttgtc catcgccaa gtggacagt 
      gacgggaaa attgtcaca acggcagtg aattccaac 
      tag
    mRNA sequence
    • >TC001715 RA
      caggtctaa gcagtaccc ggttttatc ttcactccg 
      tattcacgc gttcgaagg aaagcgcgc gctctcttc 
      aaatcagta ctattttta attcgactc ggtcttact 
      cttgagtta ttaggaatt tgttcaatt tatgactga 
      ctgtaattc gataggaag ataagagca ttcatgtta 
      agtgccaac atgtgagtg cagtgaggt ctggacagt 
      gcttacatc cagttagtg cagcttcca agtgcatct 
      ctgattttt ttgaacttg acttgccaa aaacagagc 
      atcatgaaa ttgctattg accttcgcc acgttgcac 
      ctagctctt ggagcatca atcgttgat gtgacgtgt 
      cccgaatcc tgcacttgc cgagttcag gacgaactt 
      tcctgtagc tcgtacgag ttcatcaaa aaactcgtc 
      ccgaaacaa gtatcaaca atagtgcat ttgaacata 
      aacaacgct tcagtgatc accgtcgac tccaagctg 
      aagtattta aaaaatttg cgctccctg gatttgtca 
      ggcaacaca atcaccgtg ttgccatca cagtttccg 
      tatttgcca aagctgaag agtcttaac ttgagcgcg 
      aattacttg agcagtgtc gagtttgcg caacttccg 
      aaaaattta gaagtgatt gatttgagg cataatgtg 
      attgagaat ttcccgaag gactggggc gttttgaaa 
      gaactgaaa agtgtttat tttggcgac aattccatc 
      aattgtgat tgtgacaat ttggcggtt tttgaacaa 
      ttgcgaaac gctgggatt gtttcggaa aacctgacg 
      tgtcactac cctaaagag tttcacggc cggtctttg 
      gactcagtt aattgtttc ttgatcaag gaaaatttg 
      ttgaattcg atgttgggt gatgaggct gggtcaggt 
      caagacgag tttgaagcc aaagaactg gacgaacaa 
      gaagaattt ttcaaggcg gaagacata gctcacacg 
      agcgaagac cttactgaa ggtagtggt gatgaggga 
      agtggtgac actccaatt ccaattgag ccaaaagct 
      tgccacttc aactgttct actgccaat ccgatcgga 
      atccacgac gaagtcaat gcttcgcct gctcccgac 
      ctgaaggaa ggagttgtg atgctcttt gaagacgtt 
      ctccaaccg gaaccagaa accaccacc accaccacc 
      acggaaagc ccagtcaca aatttagta cacacggga 
      aaagaagaa ccaactttc gtcaaagag tccgacaaa 
      ggtgaagtc gaaacgttc ccaactaac gataccgtt 
      ttgggcgaa atggaacga gcgagtttc gaaaattcg 
      aacacccag tctgtgtac atagtagta gggcttgta 
      atagccctg attgccttc ctgatcgtt tactacgtg 
      aatcggaag aaccagaag cggaggaat cagcggaaa 
      cgcaacaaa tcgaacgaa aacggctgt ggggaagaa 
      atgaaaccg ctaggtgtg aaagttccg attgagcaa 
      atcaacacc aagaccaac tttgaatct gcgcctttg 
      ttgaacggc aacggcaaa attagcgat gatgttgag 
      ttgcgtaaa actgaatta tcgccccag ccggaacga 
      gtgacgatc aaagcgtca gaactaccc gattcgatt 
      ccgaaaacg ccgcttctt gtccatcgc caagtggac 
      agtgacggg aaaattgtc acaacggca gtgaattcc 
      aactagtga tgtgaatac ctcagtatt taataaaag 
      atacgtatg tgataataa tcttatgcg gtcgttcct 
      atactttag tcgatactt attacgtaa gttcgcatt 
      ttgactgtt cgactgtta ttgtatatt tacttattt 
      ttatgttta tatatttat atatcgtta ccaaagtga 
      attttacgt ggagagaga ttactagca ggtggtgct 
      ttgtggtaa tgactcggt cctttgctt ggagaagtg 
      attcgccag tgccattag tttcgatga gtcacgaaa 
      atgtttagt aacttaatt taatatagt ttgcgaatt 
      gtgatttta tttaatttg ttttctact tatttattt 
      cgaaatgca aaaaatcga aactaagat ggatcgggc 
      ccagggtag gttttagtg tgagtcatt ggttatgtt 
      ggttatgaa catactcat cgtttttgt atcaatttc 
      gcaacttaa taaatcgtt taaatttgt
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