Status
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Gene information
General information
TC004596 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: 6888361..6896464
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
    TC004596
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03796

    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
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head capsule mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    labium partiallynot present - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs sometimes shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment number decreased # of remaining segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004596 RA
      MDSEEDTYD NVDSGNESS GDDVDFAME VEVTGHREK 
      QTDVDDYPY EVLSTEEIV QHMVDSIKE VNSVVEIST 
      TTTRILLNH FRWDKEKLM ERFYDGDQD KLFSEARVI 
      NPFNKYSNK VKPPKKTSN GTEECEICF MTLPSSHMT 
      GLECEHKFC THCWCEYLT TKIMEEGVG QTIACAAYG 
      CDILVDDAT VMKLVKDSK VKLKYQHLI TNSFVECNR 
      LLRWCPSPD CSNAIKVQY VEPHRVTCK CNHTFCFAC 
      GENWHDPVK CHLLKKWIK KCDDDSETS NWIAANTKE 
      CPKCNVTIE KDGGCNHMV CKNQNCKAD FCWVCLGPW 
      EPHGSSWYN CNRYDEDEA KAARDAQEK SRSALQRYL 
      FYCNRYMNH MASLKFEHK LYASVKEKM EEMQHHNMS 
      WIEVQFLKR AVDILCQCR QTLMYTYVF AYYLQKNNQ 
      SVIFEDNQK DLESATETL SEYLERDIT SENLADIKQ 
      KVQDKYRYC DSRRKVLLE HVHEGYEKE WWDYNE
    CDS sequence
    • >TC004596 RA
      atggattca gaagaggac acttatgac aatgttgat 
      tcggggaac gagtccagc ggcgacgat gttgatttt 
      gcaatggaa gttgaagtt acaggacac agggaaaag 
      cagacggac gtggacgac tacccctac gaggttttg 
      tccaccgag gagatcgtc cagcacatg gtggactcc 
      atcaaggaa gtcaactcg gttgttgag atctccacc 
      acgaccaca cgcatcctg ctcaaccac ttccgatgg 
      gacaaggaa aaactaatg gaacggttc tacgatggg 
      gaccaagac aagctcttc tcagaggcg agagtcatc 
      aacccgttc aataaatac agcaacaaa gtcaagcca 
      ccaaagaag accagcaat gggaccgag gaatgcgaa 
      atttgtttc atgactctt ccttcttcc cacatgact 
      ggactcgaa tgtgaacac aagttctgt actcactgc 
      tggtgtgag tacctgacg acgaaaata atggaagaa 
      ggcgtgggc caaacaatt gcctgtgca gcgtacggc 
      tgtgacatc cttgttgat gatgctact gttatgaaa 
      ttagtgaag gattctaaa gttaaatta aaataccaa 
      catttaatt actaatagc tttgttgag tgcaatcgc 
      ttgctgcga tggtgtccg tcacccgat tgcagcaac 
      gcaataaag gtgcagtac gtggagccc caccgtgtc 
      acgtgcaaa tgtaaccac acgttttgc tttgcgtgc 
      ggcgaaaac tggcacgac cctgtcaag tgtcactta 
      ttgaaaaaa tggataaaa aaatgtgac gacgattcg 
      gaaacgagc aactggata gcagctaac accaaagag 
      tgtccaaag tgtaacgta acgatcgag aaagacggc 
      ggttgtaac cacatggtt tgcaaaaac cagaactgc 
      aaagcggac ttctgttgg gtgtgttta gggccatgg 
      gagccccat ggtagttca tggtataat tgcaacaga 
      tacgatgag gacgaggcg aaagcggcg cgagatgct 
      caagaaaag tcgagatcg gcattgcaa agatattta 
      ttttattgt aatagatat atgaaccat atggcgtcg 
      cttaaattc gaacataag ttgtatgcc tcggttaag 
      gagaagatg gaagagatg cagcatcat aatatgagc 
      tggattgaa gttcagttt cttaaaagg gcggtcgat 
      attttgtgt caatgtcga cagacgctg atgtatact 
      tacgttttc gcttactat ttacaaaaa aataaccaa 
      tctgtgatt ttcgaagat aaccaaaaa gacctggag 
      agtgccact gaaacgtta tcggagtat ttagagaga 
      gatattacg tctgaaaat ctcgccgat attaagcaa 
      aaagtccaa gataaatac aggtattgt gacagtagg 
      aggaaagtt ctactggag catgtccac gaagggtac 
      gagaaggaa tggtgggat tataacgaa tag
    mRNA sequence
    • >TC004596 RA
      tttgacaga cgtcactaa cgtcaattg ctgagttta 
      tccttccaa aaattcagt gaatctcag ttggtaatg 
      cgttcatta tgtgtgtga gggtatttt ggtgaaaaa 
      gccgttgtt ctaaccctc ggagacttg aaatagcgg 
      agcaaaaag tgctggtgt acggtttct ggcagtctg 
      ttgttatgg attcagaag aggacactt atgacaatg 
      ttgattcgg ggaacgagt ccagcggcg acgatgttg 
      attttgcaa tggaagttg aagttacag gacacaggg 
      aaaagcaga cggacgtgg acgactacc cctacgagg 
      ttttgtcca ccgaggaga tcgtccagc acatggtgg 
      actccatca aggaagtca actcggttg ttgagatct 
      ccaccacga ccacacgca tcctgctca accacttcc 
      gatgggaca aggaaaaac taatggaac ggttctacg 
      atggggacc aagacaagc tcttctcag aggcgagag 
      tcatcaacc cgttcaata aatacagca acaaagtca 
      agccaccaa agaagacca gcaatggga ccgaggaat 
      gcgaaattt gtttcatga ctcttcctt cttcccaca 
      tgactggac tcgaatgtg aacacaagt tctgtactc 
      actgctggt gtgagtacc tgacgacga aaataatgg 
      aagaaggcg tgggccaaa caattgcct gtgcagcgt 
      acggctgtg acatccttg ttgatgatg ctactgtta 
      tgaaattag tgaaggatt ctaaagtta aattaaaat 
      accaacatt taattacta atagctttg ttgagtgca 
      atcgcttgc tgcgatggt gtccgtcac ccgattgca 
      gcaacgcaa taaaggtgc agtacgtgg agccccacc 
      gtgtcacgt gcaaatgta accacacgt tttgctttg 
      cgtgcggcg aaaactggc acgaccctg tcaagtgtc 
      acttattga aaaaatgga taaaaaaat gtgacgacg 
      attcggaaa cgagcaact ggatagcag ctaacacca 
      aagagtgtc caaagtgta acgtaacga tcgagaaag 
      acggcggtt gtaaccaca tggtttgca aaaaccaga 
      actgcaaag cggacttct gttgggtgt gtttagggc 
      catgggagc cccatggta gttcatggt ataattgca 
      acagatacg atgaggacg aggcgaaag cggcgcgag 
      atgctcaag aaaagtcga gatcggcat tgcaaagat 
      atttatttt attgtaata gatatatga accatatgg 
      cgtcgctta aattcgaac ataagttgt atgcctcgg 
      ttaaggaga agatggaag agatgcagc atcataata 
      tgagctgga ttgaagttc agtttctta aaagggcgg 
      tcgatattt tgtgtcaat gtcgacaga cgctgatgt 
      atacttacg ttttcgctt actatttac aaaaaaata 
      accaatctg tgattttcg aagataacc aaaaagacc 
      tggagagtg ccactgaaa cgttatcgg agtatttag 
      agagagata ttacgtctg aaaatctcg ccgatatta 
      agcaaaaag tccaagata aatacaggt attgtgaca 
      gtaggagga aagttctac tggagcatg tccacgaag 
      ggtacgaga aggaatggt gggattata acgaatagt 
      tagataatg caatgcctc cgttctgga agtagatcg 
      actagtatt tatagttat aataaatac ctagttacc 
      tcattgaga cggaaacac tgtcgatcc gtacttatg 
      atattagct aaagtttag ttacatcaa gaatttcga 
      tctattaac agaacgaat tttgataaa taagagttg 
      caccctgtt actgtaata tttgcattt ttgaagaag 
      acagtagat gtggacagc aaacacatt ctagatctg 
      ttttattat acttaaaag aatttgtct tttaaattt 
      ctaaaatga aagttgtga gtgattagt atattttat 
      tgttaacta ttaagtttt aactaaatg aggccattt 
      attgttcca aatgatttt gctaagaac gaaacatgt 
      tgaatagaa ccagtagtc taattttta aagtaatat 
      agaaatatt tttgcttct agatttaac gtatcttga 
      tttatttca attgtggaa tctactgtg attctaatt 
      ttctaataa ctgtaaata agctagtgg ccgattaga 
      ttccagcaa ttacaaatg atcttgatg atcatcgtt 
      ggaaattgt aacctaaga tatagagct tctatcaag 
      taaaaactt attttttgg cgactttaa gaggtaaga 
      ccgtttgtg attgtatac agatctaat tttcaatac 
      atactattt tcgtaaatg taaatattt catattggt 
      tctatcact gtcattgat ttataattt cattctgga 
      tgtacctac ttaatcgaa gtgtaaata attagatgg 
      tggatccgt cgtttctca aaattattg gtgcgcaaa 
      tagagaaat aattaacgt ctcacttta ttcattatg 
      tttctgcta cttaactca ccttattta cacatagct 
      aagttcatt atattgcgt ccgcacgtg tggacataa 
      tggaacgaa ctcaggtgt acttcgatc ggtcatttc 
      ttttaggga attgttact taatccttg ataatttct 
      taatatatg tatctgtag cacattccc caccagaaa 
      ttgtttaat tggattgtt ggcatgcaa taaattcat 
      gtaagtctc ccgattaaa aaattaaaa gtagttttg 
      tgagggaga agtcagcgc aaagtttag ttggcaacc 
      tcgcgatac tatttaaaa gtactccat cccaaatgg 
      aattaaaat aaatcttac tttaattga actcgaact 
      caatcagct ggagttctg ttattgtta agtaacaat 
      aaactgtaa atttgtaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY