Status
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Gene information
General information
TC004084 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.

NW_015450993.1: 33910..45285
Sequence information
Transcripts / Proteins (2) 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
    TC004084
    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
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    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_03687

    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: < 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004084 RA
      MAVIGYGET ADSQLGWDC GGTLISELY 
      VLTAAHCLE SRELGPSQL VRFGTTHLD 
      EPDPDLQER VVVARIPHP DYKPPLKAN 
      DIGLIKLEE PVEFTPHVR PACLNTADI 
      NPGRKALAS GFGKLSYDA ETGSKNLMK 
      VLLNVYPNN RCSKAIREQ IKDTMLCAG 
      HLEGGKDTC QGDSGGPLQ IVLEKPYCM 
      YSVIGVTSF GKFCGFANA PAIYTKISA 
      YISWIESIV WK
    • >TC004084 RB
      MQVMHGNLQ LPSNISSTK CEEYAKAVY VQTISPVLS 
      LNAKTNNVS ECGIVSVPL IIGGTAATE KEFPHMAVI 
      GYGETADSQ LGWDCGGTL ISELYVLTA AHCLESREL 
      GPSQLVRFG TTHLDEPDP DLQERVVVA RIPHPDYKP 
      PLKANDIGL IKLEEPVEF TPHVRPACL NTADINPGR 
      KALASGFGK LSYDAETGS KNLMKVLLN VYPNNRCSK 
      AIREQIKDT MLCAGHLEG GKDTCQGDS GGPLQIVLE 
      KPYCMYSVI GVTSFGKFC GFANAPAIY TKISAYISW 
      IESIVWK
    CDS sequence
    • >TC004084 RA
      atggctgtg attggatat ggggaaaca gcagattct 
      cagctcgga tgggattgt ggaggcact ttaattagt 
      gaattatat gttttaaca gctgctcat tgcttggaa 
      agtcgagaa ttaggacca tctcaactt gtccgcttt 
      ggtactaca catttagat gagccggat cccgatttg 
      caagaacgt gtagttgtt gcaagaatc cctcatcca 
      gactataaa ccaccgcta aaagccaac gatataggt 
      ttaattaaa ctagaagaa cccgtagaa ttcacacca 
      catgtaaga cctgcttgt ttaaatacc gctgatata 
      aatcctgga cgaaaagca ctagcatca gggtttggg 
      aaattgtcg tacgatgcg gaaaccggg agtaaaaac 
      ttaatgaaa gtattactc aatgtttat cccaacaat 
      cgatgctcg aaagcaata cgagaacag ataaaggac 
      acaatgctg tgtgctgga catttggaa ggaggcaaa 
      gatacttgt cagggagac tcaggaggt ccattgcag 
      attgtttta gaaaaacca tactgtatg tatagtgtt 
      attggagtt acttccttt gggaaattt tgtggtttt 
      gctaatgca ccagccatt tatacaaaa atttccgct 
      tatatttct tggattgaa agtattgta tggaaataa
    • >TC004084 RB
      atgcaagtg atgcacgga aacttgcaa cttcctagt 
      aatatttca tccacgaaa tgtgaggaa tatgcaaaa 
      gcagtttat gttcaaact atcagtcca gtgctgtct 
      ctaaacgcc aaaacaaat aatgtatcc gaatgtgga 
      atcgtgtca gtgccttta ataataggc ggaacagct 
      gcaaccgaa aaagaattt cctcacatg gctgtgatt 
      ggatatggg gaaacagca gattctcag ctcggatgg 
      gattgtgga ggcacttta attagtgaa ttatatgtt 
      ttaacagct gctcattgc ttggaaagt cgagaatta 
      ggaccatct caacttgtc cgctttggt actacacat 
      ttagatgag ccggatccc gatttgcaa gaacgtgta 
      gttgttgca agaatccct catccagac tataaacca 
      ccgctaaaa gccaacgat ataggttta attaaacta 
      gaagaaccc gtagaattc acaccacat gtaagacct 
      gcttgttta aataccgct gatataaat cctggacga 
      aaagcacta gcatcaggg tttgggaaa ttgtcgtac 
      gatgcggaa accgggagt aaaaactta atgaaagta 
      ttactcaat gtttatccc aacaatcga tgctcgaaa 
      gcaatacga gaacagata aaggacaca atgctgtgt 
      gctggacat ttggaagga ggcaaagat acttgtcag 
      ggagactca ggaggtcca ttgcagatt gttttagaa 
      aaaccatac tgtatgtat agtgttatt ggagttact 
      tcctttggg aaattttgt ggttttgct aatgcacca 
      gccatttat acaaaaatt tccgcttat atttcttgg 
      attgaaagt attgtatgg aaataa
    mRNA sequence
    • >TC004084 RA
      aaacgccaa aacaaataa tgtatccga atgtggaat 
      cgtgtcagt gcctttaat aataggcgg aacagctgc 
      aaccgaaaa agaatttcc tcacatggc tgtgattgg 
      atatgggga aacagcaga ttctcagct cggatggga 
      ttgtggagg cactttaat tagtgaatt atatgtttt 
      aacagctgc tcattgctt ggaaagtcg agaattagg 
      accatctca acttgtccg ctttggtac tacacattt 
      agatgagcc ggatcccga tttgcaaga acgtgtagt 
      tgttgcaag aatccctca tccagacta taaaccacc 
      gctaaaagc caacgatat aggtttaat taaactaga 
      agaacccgt agaattcac accacatgt aagacctgc 
      ttgtttaaa taccgctga tataaatcc tggacgaaa 
      agcactagc atcagggtt tgggaaatt gtcgtacga 
      tgcggaaac cgggagtaa aaacttaat gaaagtatt 
      actcaatgt ttatcccaa caatcgatg ctcgaaagc 
      aatacgaga acagataaa ggacacaat gctgtgtgc 
      tggacattt ggaaggagg caaagatac ttgtcaggg 
      agactcagg aggtccatt gcagattgt tttagaaaa 
      accatactg tatgtatag tgttattgg agttacttc 
      ctttgggaa attttgtgg ttttgctaa tgcaccagc 
      catttatac aaaaatttc cgcttatat ttcttggat 
      tgaaagtat tgtatggaa ataaaaata aatgtatta 
      tataata
    • >TC004084 RB
      gagttttcc caatatctc attatgcaa gtgatgcac 
      ggaaacttg caacttcct agtaatatt tcatccacg 
      aaatgtgag gaatatgca aaagcagtt tatgttcaa 
      actatcagt ccagtgctg tctctaaac gccaaaaca 
      aataatgta tccgaatgt ggaatcgtg tcagtgcct 
      ttaataata ggcggaaca gctgcaacc gaaaaagaa 
      tttcctcac atggctgtg attggatat ggggaaaca 
      gcagattct cagctcgga tgggattgt ggaggcact 
      ttaattagt gaattatat gttttaaca gctgctcat 
      tgcttggaa agtcgagaa ttaggacca tctcaactt 
      gtccgcttt ggtactaca catttagat gagccggat 
      cccgatttg caagaacgt gtagttgtt gcaagaatc 
      cctcatcca gactataaa ccaccgcta aaagccaac 
      gatataggt ttaattaaa ctagaagaa cccgtagaa 
      ttcacacca catgtaaga cctgcttgt ttaaatacc 
      gctgatata aatcctgga cgaaaagca ctagcatca 
      gggtttggg aaattgtcg tacgatgcg gaaaccggg 
      agtaaaaac ttaatgaaa gtattactc aatgtttat 
      cccaacaat cgatgctcg aaagcaata cgagaacag 
      ataaaggac acaatgctg tgtgctgga catttggaa 
      ggaggcaaa gatacttgt cagggagac tcaggaggt 
      ccattgcag attgtttta gaaaaacca tactgtatg 
      tatagtgtt attggagtt acttccttt gggaaattt 
      tgtggtttt gctaatgca ccagccatt tatacaaaa 
      atttccgct tatatttct tggattgaa agtattgta 
      tggaaataa aaataaatg tattatata ata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY