Status
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Gene information
General information
TC005396 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_007423.3: 13805233..13808087
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
    TC005396
    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
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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_06387

    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: 40.0% (includes death as pupa, adult)

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


    adult lethality - Number of animals showing the phenotype: 2 (9 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 9 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 9 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005396 RA
      MYCLNGFRD KTEVVREQA IKFMHFLII DKLPLNDFY 
      LTYVCPVLV ERVGTLELI EESEEIRLE LVKFLQAII 
      LKYSNSEQL KPFLNDCVV ILCQTITDK HPAIKELSC 
      KCVTDLAEA LPRDFHMQA ENLIKPIVS CFGHQRFRV 
      RVEAIRATG EVIMHSSYK GLDEVVGPL AEKLFDQIP 
      LVRRTVAQV AARWLQDYR DRYSFFHKI LPLLLTGLN 
      DEVEETRNE STQLWEKVG LQYQKENEK DLKDQIDFL 
      LELPKHYPT ELKRPNLGC RVLVQRNVG KLAKALSYE 
      LTSWQEDVR VRCSQLLCS LALHAEDGL TQNLQELLP 
      AMYSAARDD DQRVVVNIF RASEIMGFF IPVKTWQQL 
      ILPVVEDGA HFGHLVVLG GFIKGAPLE HVTGCLVEI 
      TKVISDDSI CYTRKKKLQ TELVKCCDA ISEKISKSD 
      PEVGFHLFK ILISVISLR DPENSHLTI ELLEPLVST 
      LQFSGLDCL WGAYVGRLL GHIQNEPKS WLVTTPQRC 
      IFETILLHS NSAFGENLP KIGEILAQS LHPEADPES 
      RLKTFWALS TAFDNKSVI FRKSSDLVT EFFEKLISE 
      IFVPSLVWR PGLTAEALR TMAASCLLC ALSPIQGVD 
      LFKSGAVLR QLCDKLAPL LISLMEDAS FRSRQLALE 
      CVTVLKKHA SGLGIWTND DLVKLYPEI LKRLDDPTD 
      KVRVCALKI LPEIFINAP EAFHEAHFK AHHELIIDT 
      LLTHFDDDD QEVRDLVFD VLKVIAEIN RDLVFSKIE 
      RHQPLLCNK DGCDAVLNY LNELKLD
    CDS sequence
    • >TC005396 RA
      atgtactgc ttgaacggc tttcgggac aagaccgag 
      gtcgtgcgg gagcaagcc atcaagttt atgcatttt 
      ctgatcatt gacaagttg cccctgaat gatttttac 
      ttgacttat gtttgcccc gttttggtt gagcgtgtg 
      ggcactttg gaattgatc gaagaatcg gaagaaatc 
      agactcgaa ctcgtcaaa ttcctccaa gctattatc 
      ctcaaatac tcaaatagt gaacaactc aagccgttt 
      ttaaacgac tgtgttgtt attttgtgc cagaccatc 
      acagataaa cacccagca atcaaggag ctgagctgc 
      aagtgtgtc acagacttg gctgaagcc ctcccaagg 
      gacttccac atgcaagcc gaaaattta atcaaaccg 
      atcgtgtct tgttttggc caccaacgc ttcagagtg 
      agagttgaa gctattaga gcgactggc gaggtgatc 
      atgcacagc tcttacaag gggctggac gaggtcgtg 
      ggccccctt gctgaaaaa ctattcgac caaataccg 
      ctagttagg cgcacggtg gcccaagtg gccgccagg 
      tggctccag gactatcgc gaccgttat tccttcttc 
      cataaaatt ttaccgcta cttttgacc gggttaaac 
      gacgaggtt gaagagaca cgaaacgaa tcaacccaa 
      ctgtgggaa aaagtcggt ttgcagtac cagaaggaa 
      aacgagaag gacctaaag gaccaaatt gacttcctg 
      ttagaatta cccaaacat taccccact gagctgaaa 
      cggcctaat ttgggctgt cgtgtgcta gttcagcgc 
      aatgtgggt aagttggcc aaggcgctg tcttacgaa 
      ttgacaagt tggcaggag gacgtgcga gtgcgttgt 
      tcgcaactt ctttgcagt cttgcgtta catgcagag 
      gatggtttg acgcaaaat ttgcaagaa ctgttgcct 
      gctatgtat tcagctgcg cgtgatgat gatcaaaga 
      gttgttgtt aatattttc cgagctagt gaaataatg 
      gggtttttt atacccgta aaaacgtgg caacaatta 
      atacttccg gttgtggaa gatggggcc catttcggg 
      catttggtt gttttgggt ggttttatc aagggggcg 
      cctttggaa catgtgact gggtgtttg gtcgaaatt 
      acgaaagtg atttcggac gattcgatt tgttacact 
      cgtaaaaaa aaacttcaa acggaatta gttaaatgt 
      tgtgacgca atttcggaa aaaatctca aagtccgac 
      cctgaggtc ggttttcat ttgtttaaa attctaatt 
      tcggtgatt tcgctccgc gatcctgaa aattctcac 
      ctcacgatt gaattgctt gagcccctt gtctcaact 
      ttgcaattt tctggtctt gattgtctt tggggtgcg 
      tacgtgggg cgccttttg gggcacatt caaaacgag 
      ccgaaatcg tggctcgtg accactccc caacgctgt 
      attttcgag acaatcctt ctacattca aacagcgca 
      tttggggag aatctcccc aaaattggg gaaattctg 
      gcccaaagt ttgcaccca gaggccgac cctgaatca 
      cgtctcaag actttctgg gctttgtcc accgcgttc 
      gataacaaa tctgtgatt tttcgaaaa tcgagtgat 
      ttggtaacg gaatttttc gaaaaatta atttcggaa 
      atttttgtt ccgtctctg gtgtggagg ccgggtttg 
      accgccgag gcgttgcgc acaatggca gcatcgtgt 
      cttttgtgc gctttaagc cccattcaa ggggttgat 
      ttatttaaa agtggggcc gttttgaga caattgtgc 
      gataagttg gccccactt ttgatttct ttgatggaa 
      gatgcgtcc tttaggagt agacagttg gcgctggag 
      tgcgtcact gttttgaaa aaacacgca agtgggctt 
      ggaatttgg acaaatgat gatttagtt aagttgtat 
      ccagaaatt ctgaagcga ctagatgac ccaactgat 
      aaagttagg gtttgtgcc ttgaagatt ttgcccgaa 
      attttcata aatgcacct gaagcgttc cacgaagcg 
      cattttaag gcccatcat gagcttatt attgatacg 
      ctcttaaca catttcgat gatgatgat caggaggtc 
      agagactta gtttttgat gttttgaaa gttatcgcc 
      gaaattaat cgtgaccta gttttttca aaaatcgag 
      cgacatcag ccactgtta tgcaacaaa gacggttgt 
      gacgcagtt ttgaattac ttaaatgaa ttaaaactt 
      gattaa
    mRNA sequence
    • >TC005396 RA
      ggaccccaa aaacgaggt ctcgggtga ggagctgcg 
      cgagatctt cgtcgagac gcacatgta ctgcttgaa 
      cggctttcg ggacaagac cgaggtcgt gcgggagca 
      agccatcaa gtttatgca ttttctgat cattgacaa 
      gttgcccct gaatgattt ttacttgac ttatgtttg 
      ccccgtttt ggttgagcg tgtgggcac tttggaatt 
      gatcgaaga atcggaaga aatcagact cgaactcgt 
      caaattcct ccaagctat tatcctcaa atactcaaa 
      tagtgaaca actcaagcc gtttttaaa cgactgtgt 
      tgttatttt gtgccagac catcacaga taaacaccc 
      agcaatcaa ggagctgag ctgcaagtg tgtcacaga 
      cttggctga agccctccc aagggactt ccacatgca 
      agccgaaaa tttaatcaa accgatcgt gtcttgttt 
      tggccacca acgcttcag agtgagagt tgaagctat 
      tagagcgac tggcgaggt gatcatgca cagctctta 
      caaggggct ggacgaggt cgtgggccc ccttgctga 
      aaaactatt cgaccaaat accgctagt taggcgcac 
      ggtggccca agtggccgc caggtggct ccaggacta 
      tcgcgaccg ttattcctt cttccataa aattttacc 
      gctactttt gaccgggtt aaacgacga ggttgaaga 
      gacacgaaa cgaatcaac ccaactgtg ggaaaaagt 
      cggtttgca gtaccagaa ggaaaacga gaaggacct 
      aaaggacca aattgactt cctgttaga attacccaa 
      acattaccc cactgagct gaaacggcc taatttggg 
      ctgtcgtgt gctagttca gcgcaatgt gggtaagtt 
      ggccaaggc gctgtctta cgaattgac aagttggca 
      ggaggacgt gcgagtgcg ttgttcgca acttctttg 
      cagtcttgc gttacatgc agaggatgg tttgacgca 
      aaatttgca agaactgtt gcctgctat gtattcagc 
      tgcgcgtga tgatgatca aagagttgt tgttaatat 
      tttccgagc tagtgaaat aatggggtt ttttatacc 
      cgtaaaaac gtggcaaca attaatact tccggttgt 
      ggaagatgg ggcccattt cgggcattt ggttgtttt 
      gggtggttt tatcaaggg ggcgccttt ggaacatgt 
      gactgggtg tttggtcga aattacgaa agtgatttc 
      ggacgattc gatttgtta cactcgtaa aaaaaaact 
      tcaaacgga attagttaa atgttgtga cgcaatttc 
      ggaaaaaat ctcaaagtc cgaccctga ggtcggttt 
      tcatttgtt taaaattct aatttcggt gatttcgct 
      ccgcgatcc tgaaaattc tcacctcac gattgaatt 
      gcttgagcc ccttgtctc aactttgca attttctgg 
      tcttgattg tctttgggg tgcgtacgt ggggcgcct 
      tttggggca cattcaaaa cgagccgaa atcgtggct 
      cgtgaccac tccccaacg ctgtatttt cgagacaat 
      ccttctaca ttcaaacag cgcatttgg ggagaatct 
      ccccaaaat tggggaaat tctggccca aagtttgca 
      cccagaggc cgaccctga atcacgtct caagacttt 
      ctgggcttt gtccaccgc gttcgataa caaatctgt 
      gatttttcg aaaatcgag tgatttggt aacggaatt 
      tttcgaaaa attaatttc ggaaatttt tgttccgtc 
      tctggtgtg gaggccggg tttgaccgc cgaggcgtt 
      gcgcacaat ggcagcatc gtgtctttt gtgcgcttt 
      aagccccat tcaaggggt tgatttatt taaaagtgg 
      ggccgtttt gagacaatt gtgcgataa gttggcccc 
      acttttgat ttctttgat ggaagatgc gtcctttag 
      gagtagaca gttggcgct ggagtgcgt cactgtttt 
      gaaaaaaca cgcaagtgg gcttggaat ttggacaaa 
      tgatgattt agttaagtt gtatccaga aattctgaa 
      gcgactaga tgacccaac tgataaagt tagggtttg 
      tgccttgaa gattttgcc cgaaatttt cataaatgc 
      acctgaagc gttccacga agcgcattt taaggccca 
      tcatgagct tattattga tacgctctt aacacattt 
      cgatgatga tgatcagga ggtcagaga cttagtttt 
      tgatgtttt gaaagttat cgccgaaat taatcgtga 
      cctagtttt ttcaaaaat cgagcgaca tcagccact 
      gttatgcaa caaagacgg ttgtgacgc agttttgaa 
      ttacttaaa tgaattaaa acttgatta atttgtaaa 
      taaacgata tttatcagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY