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Gene information
General information
TC001083 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_007417.3: 10686670..10688402
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
      TC001083
      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_00212

      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)

      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: 20.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

      larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
      Days post injection


      adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
      Days post injection


      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC001083 RA
        MTSTETTEN QLTPQTPVL TVACRILRS PSHESVTTD 
        LSLFSVSSV ASDAQVGRR LLSFGKCDS QFVRGHSPN 
        PDSRLQDRP ADIPEILWF EEETELIRS CAALSSAVG 
        LQKSFSTSD ISQLPSPED GSNVPGLRS AVSELALNT 
        LQRSGFLLE NARLDHTSR SCSTWVAVG DIASTSQLP 
        SPHGGQSAA TAQPQTATP PPPPVFTAA DFIRSVNKK 
        VRQNYIRRR LLTTYKALE RLSQSEFNL DRLEITPST 
        ATASVNTEC GQNSGPVRL TVPGSSPSA KANPPPPNS 
        TNAAVLRAA KQRASKNLP LTIRDVERE RGKPLSKYE 
        RNMMIFNWL HTLDDNVFV EGIQ
      CDS sequence
      • >TC001083 RA
        atgacttcg actgaaaca accgagaac caattgact 
        cctcaaacc ccagtgcta actgttgca tgtcgtatt 
        ctgcgatca ccatcgcac gaatcggtg accacggac 
        ttatccctg ttctcagtg tcttcagta gcgtccgac 
        gcacaagtg gggcgccgc cttcttagc ttcggcaag 
        tgtgatagc caattcgtc agggggcac agccccaac 
        cccgacagc aggctccag gacaggccg gccgacatc 
        cctgagatc ctctggttt gaggaagag actgaactg 
        atacgaagt tgtgcggcc ttgtcgtct gcagtcggc 
        ctccagaag agcttcagc actagcgac ataagtcaa 
        ttaccctcg cctgaagat ggctcaaac gtgccagga 
        ctcagaagt gccgtctcc gaactcgct ctcaacact 
        ctacaacgg tcaggtttc ctcctggaa aacgcccgc 
        ctggaccac acgtccaga tcctgctcc acttgggtg 
        gcagtgggc gacattgct tccacttcg cagctgccc 
        tcaccccac ggggggcaa agcgctgcg actgcacag 
        ccccagaca gcaacgccg ccgccgcca ccggtcttc 
        acagcggcg gattttatc cgctccgtc aataaaaag 
        gtgcgccag aactacatc aggcgaaga cttctcacc 
        acgtacaag gctctcgag cggctctcg caaagcgaa 
        tttaattta gataggcta gaaataact ccatctaca 
        gcaacggcc agtgtgaac acagagtgt ggacaaaac 
        tctgggcca gtccgtcta acagtgcca ggttcgagt 
        ccgtcggcc aaagccaat cctccgcct cctaatagt 
        actaatgcg gcggttcta cgagcggcg aagcaaaga 
        gctagcaaa aacttaccg ctgacaata cgagatgtc 
        gagcgggaa agggggaaa cccctctcg aagtacgaa 
        agaaatatg atgattttt aactggctg catacgctt 
        gacgataat gtctttgtt gaaggtatt cagtaa
      mRNA sequence
      • >TC001083 RA
        cgcatttcc aaagtcacc caaattttg caaaaagcc 
        aaagtcatg taataatgt agtgccggt aatccagct 
        actattgtc ccgaaaatg acttcgact gaaacaacc 
        gagaaccaa ttgactcct caaacccca gtgctaact 
        gttgcatgt cgtattctg cgatcacca tcgcacgaa 
        tcggtgacc acggactta tccctgttc tcagtgtct 
        tcagtagcg tccgacgca caagtgggg cgccgcctt 
        cttagcttc ggcaagtgt gatagccaa ttcgtcagg 
        gggcacagc cccaacccc gacagcagg ctccaggac 
        aggccggcc gacatccct gagatcctc tggtttgag 
        gaagagact gaactgata cgaagttgt gcggccttg 
        tcgtctgca gtcggcctc cagaagagc ttcagcact 
        agcgacata agtcaatta ccctcgcct gaagatggc 
        tcaaacgtg ccaggactc agaagtgcc gtctccgaa 
        ctcgctctc aacactcta caacggtca ggtttcctc 
        ctggaaaac gcccgcctg gaccacacg tccagatcc 
        tgctccact tgggtggca gtgggcgac attgcttcc 
        acttcgcag ctgccctca ccccacggg gggcaaagc 
        gctgcgact gcacagccc cagacagca acgccgccg 
        ccgccaccg gtcttcaca gcggcggat tttatccgc 
        tccgtcaat aaaaaggtg cgccagaac tacatcagg 
        cgaagactt ctcaccacg tacaaggct ctcgagcgg 
        ctctcgcaa agcgaattt aatttagat aggctagaa 
        ataactcca tctacagca acggccagt gtgaacaca 
        gagtgtgga caaaactct gggccagtc cgtctaaca 
        gtgccaggt tcgagtccg tcggccaaa gccaatcct 
        ccgcctcct aatagtact aatgcggcg gttctacga 
        gcggcgaag caaagagct agcaaaaac ttaccgctg 
        acaatacga gatgtcgag cgggaaagg gggaaaccc 
        ctctcgaag tacgaaaga aatatgatg atttttaac 
        tggctgcat acgcttgac gataatgtc tttgttgaa 
        ggtattcag taaaatgtt taatatgtt tcatggtgc 
        tcttgtatc tctgggcat tttgtttca attagctaa 
        acggtgagc taaacgtac ccaaaatat ttagacttg 
        aattgttat caattttgt ataatgcga attatttgt 
        ataacaaga attttttct atcgcgaat atggagtct 
        attctccga gtacttgta ttttttcaa agtgttttg 
        atttattat agaaatctg aatgtgcaa gtgacatgc 
        tgacgttgg gtctttcgg ttagtttac gaaatctga 
        tacatttag cacacccgt attcaaaag agatgtcac 
        attttgtgg atcactgta tcatatcaa taaaatcca 
        ttttgtttt
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY