Status
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Gene information
General information
TC000953 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: 8853735..8857940
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
    TC000953
    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_09629

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (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
    • >TC000953 RA
      MVSTRQMSI GNSGTTEGS EHAENGPAK YTRNSTAAA 
      HSSHQGQCS KSTTNAPAK LHFLDLPQE IIEKIFSYL 
      TYKNICQLR FVCTRIDRI CGHILNTTF QRLQHQLLD 
      RFHEIKRKM PRRESARRN HHLACESDI IETLHMRLT 
      LLQMSLGKH IERKHCCFF PGEILDEVL HILHYIKVT 
      PKLARPYKV TDELFDLST MAMEYFKEK IEPDLPEIA 
      YFNTDFLDF AGSYPSTSK KNYLLDSFS IDMDEAKDA 
      DSPPHDASN AEASPEGVP QSNIVLRKG IRKIKQGMK 
      RYNSQLTIL RQDVRSCRQ KAAEQQKLM SEQQKQLAE 
      QQKQILEYA TRMDENDKK NEEISRKFS TLLQELNKC 
      KTELQYWRS KSPATPLFC TSCGNAVLP HPEELEALV 
      NQGVNPLGL EPISDFEPI PGSSNSEEA ALEVEAAAE 
      PCKSTKRKL EDNTPTRAS TSKKSRRIL KGRTNKRSK 
      I
    CDS sequence
    • >TC000953 RA
      atggtttcg acaaggcag atgagtatt gggaacagt 
      gggacgact gaggggtca gaacacgcg gaaaatggg 
      ccggctaag tacacaagg aacagcacc gctgctgca 
      cattccagt catcaagga caatgcagc aaaagcacc 
      accaatgca ccggcgaaa ctgcatttt ttagaccta 
      cctcaggaa attatcgag aagattttt agctattta 
      acctacaaa aatatctgc cagctgaga tttgtttgc 
      acccgaatc gatcgtatt tgcggccat attttgaac 
      acgaccttt caacgtttg caacatcag ctccttgac 
      cgatttcac gaaatcaaa cgtaaaatg cctcgtcga 
      gagagcgcc cgtcgaaac catcaccta gcttgtgaa 
      agcgacatc atagagacc ctccacatg agactaacc 
      ctcttgcaa atgtccctc ggcaagcac atagaacgt 
      aaacattgc tgctttttc ccgggcgaa atcctcgac 
      gaagtttta cacattttg cattacatc aaagtcact 
      ccaaaactc gcacgtccc tataaagta accgacgaa 
      cttttcgac ttgtccaca atggccatg gagtacttc 
      aaggagaaa atcgagccg gacttgccc gaaatcgct 
      tatttcaac acggatttc ctcgacttc gccgggagc 
      tacccttcc actagcaag aaaaactac ctgttggac 
      tcgttctcg atcgacatg gacgaagcg aaagacgct 
      gacagcccc ccgcatgac gcttcgaac gcggaggct 
      tcgccggaa ggggtcccc caatcgaac atcgtactg 
      cgaaaaggc atccggaaa atcaagcaa ggcatgaag 
      cggtacaac agtcagttg acgatcctg cgacaggac 
      gtgcgctcc tgccgacag aaagccgcc gaacaacag 
      aaacttatg tccgaacag cagaaacaa ctcgctgaa 
      caacaaaaa caaatcctc gaatacgcc acacgcatg 
      gatgaaaac gacaaaaag aacgaggaa atttcacga 
      aaattcagc acactgttg caggaattg aataaatgt 
      aaaacggaa ctgcagtac tggcgatcg aagtcgccg 
      gcgactccg cttttctgc actagttgc ggaaatgca 
      gtgcttccg cacccagag gagttggag gcgttggtg 
      aaccaaggg gtgaatccg ctggggttg gagcccatt 
      tcggatttc gagccgatt ccggggagc agtaacagc 
      gaagaggcg gctttggag gtcgaggcg gccgccgag 
      ccgtgtaaa agtactaaa cggaaatta gaagataat 
      acaccgacg agagcttcg actagtaaa aagtcgcgg 
      aggattctc aaagggcgc accaataaa agatcaaaa 
      atttaa
    mRNA sequence
    • >TC000953 RA
      ttttactgg aaaaaccgt gaaatggtt taggttttg 
      gtcgaaaaa gctgtcgat tcgtttgaa tgaggaacg 
      actgggccg ctgattggc tgtaaaccc ccgcgcgtg 
      tgccttggt acttttctt gtttcggtt tgttgtatt 
      ggctgtgtt gatttggtg agtttctcc cgattctcc 
      gagcatcca gaggtaacg tttcgaaat tcgcaagga 
      cttggtgaa tcctttgtc cttaaaagt ccgaatcct 
      ttgagaaag acagcccct ttcgagccc taaagcccc 
      gaaaatgca gccgaaagt gcgcgcttt ccgccaatc 
      cgctcgcaa atgaaaggg aaaagctgt ttgttccag 
      caggtgaag aagtgagtc cagggggtt gcagtcatg 
      gtttcgaca aggcagatg agtattggg aacagtggg 
      acgactgag gggtcagaa cacgcggaa aatgggccg 
      gctaagtac acaaggaac agcaccgct gctgcacat 
      tccagtcat caaggacaa tgcagcaaa agcaccacc 
      aatgcaccg gcgaaactg catttttta gacctacct 
      caggaaatt atcgagaag atttttagc tatttaacc 
      tacaaaaat atctgccag ctgagattt gtttgcacc 
      cgaatcgat cgtatttgc ggccatatt ttgaacacg 
      acctttcaa cgtttgcaa catcagctc cttgaccga 
      tttcacgaa atcaaacgt aaaatgcct cgtcgagag 
      agcgcccgt cgaaaccat cacctagct tgtgaaagc 
      gacatcata gagaccctc cacatgaga ctaaccctc 
      ttgcaaatg tccctcggc aagcacata gaacgtaaa 
      cattgctgc tttttcccg ggcgaaatc ctcgacgaa 
      gttttacac attttgcat tacatcaaa gtcactcca 
      aaactcgca cgtccctat aaagtaacc gacgaactt 
      ttcgacttg tccacaatg gccatggag tacttcaag 
      gagaaaatc gagccggac ttgcccgaa atcgcttat 
      ttcaacacg gatttcctc gacttcgcc gggagctac 
      ccttccact agcaagaaa aactacctg ttggactcg 
      ttctcgatc gacatggac gaagcgaaa gacgctgac 
      agccccccg catgacgct tcgaacgcg gaggcttcg 
      ccggaaggg gtcccccaa tcgaacatc gtactgcga 
      aaaggcatc cggaaaatc aagcaaggc atgaagcgg 
      tacaacagt cagttgacg atcctgcga caggacgtg 
      cgctcctgc cgacagaaa gccgccgaa caacagaaa 
      cttatgtcc gaacagcag aaacaactc gctgaacaa 
      caaaaacaa atcctcgaa tacgccaca cgcatggat 
      gaaaacgac aaaaagaac gaggaaatt tcacgaaaa 
      ttcagcaca ctgttgcag gaattgaat aaatgtaaa 
      acggaactg cagtactgg cgatcgaag tcgccggcg 
      actccgctt ttctgcact agttgcgga aatgcagtg 
      cttccgcac ccagaggag ttggaggcg ttggtgaac 
      caaggggtg aatccgctg gggttggag cccatttcg 
      gatttcgag ccgattccg gggagcagt aacagcgaa 
      gaggcggct ttggaggtc gaggcggcc gccgagccg 
      tgtaaaagt actaaacgg aaattagaa gataataca 
      ccgacgaga gcttcgact agtaaaaag tcgcggagg 
      attctcaaa gggcgcacc aataaaaga tcaaaaatt 
      taattcgct tagtgatgt tttggttga ctgcctttt 
      taagactgg taaagtgtt atatttgga gcttttttg 
      tgcacagcc agaaatttt ttcctttga tttttttcc 
      actcctcac gaaaggtag aacaatact actcagctt 
      taaagtatt acatgctct ccgtgtctg ttgtatatt 
      gtgtctcag gaagtgtcc atatttgct agccagttt 
      agagaatta tgtgtgata ggactacga aactcttgc 
      cccatctcc cgtttttgt attttgtat aaaattgag 
      tgtttattc agtggattt cagttgtag ggtccaaat 
      aatgagttt ttttggaca ctgccattt atgtatggg 
      aacatacga ttacaacat ttctagtac aagtttttt 
      tagactaat tttgtaaac ataatgttt tagttagtt 
      ttgttcagt gtaaattga tagtgtata ttacagaca 
      aaattgatt gattcaata tcgcgcttc atatagttt 
      attttgcat aaaatgtta acgagttta ctaatttca 
      atagtttat aggtagttt aattttact aaacattgt 
      tgatacaca gtataatct tttttctaa cttaattta 
      atataaagt gtcctttta tttggaaaa ttaggatag 
      gtgtgataa acactacta gatttaaaa attaacaaa 
      attgaataa acaaagaaa aaaatgtct attttcaaa 
      tttaatata tgtacctat gtacccgta ttttattta 
      gttaataaa ttatttgtg tgata
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY