Status
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Gene information
General information
TC008673 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_007422.5: 13923853..13926801
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
    TC008673
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01386

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 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
    • >TC008673 RA
      MSSELDKSQ HILPLDQPI VTLEVASAF KGLTDTEKR 
      YAHHISQAS WTGGLITFL QTSPESGPI FVLLHKLFS 
      GLKPQDFKK VALQAGFSE DEAKAFLVY ACGIFSNAG 
      NYKGFGDSK FVPGIAQDR LESLLAATP VWPKIKELW 
      AKVKNAMYD LSPGKTCLG YAPHGCTTY LSKNCTPED 
      NQRVQDWMK TQNIEGYNT RLFKTVLPD GKIDYEIRL 
      ASKETGEIS KETYGNMTF RLTKGDYSP IIGKVAESL 
      EEASKYAAN PTQAKMLKA YAQSFITGS LDLHKDGSR 
      HWIKDKGPA VETYIGFIE TYRDPAGIR GEFEGFVAI 
      VNRAMSAKF TTLVSKAEE FLPLLPWPK GFEKDKFLR 
      PDFTSLDVL TFASSGIPA GINIPNYDD IRQSEGFKN 
      VSLGNVIPA SYQMSVIPF LNESDTQLI QKYRVASFE 
      LQVGLHELL GHGSGKIFY RAADGTFNY PNTLLDPLT 
      GKPPSTYYE PGDTYDSRF GPMSSSYEE CRAEAVGLY 
      LSLEPAVLQ IFGHKGQEA EDVLYVNWL SLVWNGIGR 
      ALETWDPKR GWLQAHSQA RFVLARVLI QAGVASVTQ 
      PSDGDLLVT LDRAALKGA GRSAIAHFL LQLQVYKAT 
      ANIEAAQNL YQHYSEVCE PWLSWRAIV LANKQPRKI 
      FAQANTVLS SNVELKTYG ETPEGMIQS WTERFPNPE 
      PLYQALIDL SASNEHYFI
    CDS sequence
    • >TC008673 RA
      atgagttct gaacttgat aaatcccaa cacatcctg 
      cccttagac caacctatt gtcacccta gaagttgcc 
      tcagcattt aagggactg actgacacg gagaagaga 
      tacgctcat cacataagt caagcgtcc tggaccggg 
      ggcctaata actttctta caaacaagc ccagaatct 
      ggaccaatt tttgtcctt ttgcataaa ctattctca 
      ggtcttaag cctcaggat ttcaaaaaa gtagccctt 
      caggctggg tttagcgaa gatgaagcc aaggcgttc 
      ctggtttac gcgtgtgga atcttcagt aacgctggg 
      aattataag gggtttggg gactcaaaa ttcgtcccg 
      gggatagca caggacagg cttgagtcg ctccttgcg 
      gctactcct gtttggccc aaaattaaa gaattgtgg 
      gctaaggtg aagaacgct atgtatgac cttagccct 
      ggtaagaca tgcctaggg tatgccccc catgggtgc 
      accacctac ttgtcgaaa aactgcacg cctgaggac 
      aatcaaagg gtgcaagac tggatgaag acccagaat 
      attgaaggc tacaacacg cgtttgttc aaaactgtg 
      ctcccggat gggaagatt gattacgaa attcggttg 
      gcttcgaaa gaaaccggc gaaatctcg aaagaaacc 
      tacgggaac atgacgttt cgcctaact aaaggcgac 
      tattcgccg attattgga aaagtcgct gaaagtctg 
      gaggaagct tcaaaatat gctgccaat cccactcag 
      gccaaaatg ttaaaggcc tatgcccag tcgtttatt 
      acgggttct ttggacctt cacaaagat gggtcccgg 
      cactggatt aaggacaag ggcccagct gtggaaacc 
      tacattggc ttcatagaa acctacaga gatccggcc 
      ggaattagg ggcgaattt gaagggttt gtcgcgatc 
      gtgaatcgc gcaatgtcg gccaaattc acaactttg 
      gtctccaaa gctgaggag tttttgccc ttgttgccg 
      tggcctaaa gggttcgaa aaagacaag tttttgagg 
      cccgatttt acctcgctt gatgtgctc acgtttgcg 
      tccagcgga ataccggcc gggattaac attcccaac 
      tacgacgat atccggcaa agcgaaggt ttcaagaac 
      gtctcttta ggaaacgtc ataccggcc agttatcaa 
      atgtctgtg attccattc ttgaacgag tctgataca 
      caattgatc caaaaatat cgcgttgct tccttcgaa 
      ttacaggtg ggccttcac gaattgtta ggtcacggt 
      tccggcaaa atattttat cgtgccgcc gatggaacg 
      ttcaattac ccaaacaca ctgttggac cccttgacg 
      gggaaacct ccatccacg tactacgag cctggggac 
      acctacgat tcgcgtttt ggtccaatg agctcttca 
      tacgaggaa tgccgagct gaagccgtt ggtttatat 
      ttaagtttg gagccggca gtgttgcaa attttcggc 
      cacaaaggc caagaagcc gaggatgtc ctctatgtg 
      aattggttg tctttggtt tggaacggc attggccgg 
      gctttggaa acgtgggat ccgaagcga ggctggctc 
      caagcccac tcccaggcc cgattcgtg ctggcgcgt 
      gttttgatt caagccggt gttgcgagt gtcacacag 
      cccagtgac ggcgatctt ttggtcact ctagaccgt 
      gctgcattg aaaggcgcc ggtcggagt gccatcgct 
      cattttctg ctccagttg caagtttac aaagcaacg 
      gcgaatatc gaagcagct cagaatttg taccaacac 
      tattccgaa gtgtgtgag ccgtggttg agctggcgc 
      gcgattgtt ttggccaat aagcaacca aggaagatt 
      tttgcgcag gctaatact gtgttgagt tcgaacgtc 
      gaattgaaa acgtatggg gaaaccccg gaagggatg 
      atccagtcg tggactgaa cggttcccg aatcccgag 
      cccttgtat caggctttg atagattta agtgcctct 
      aatgagcac tattttatt taa
    mRNA sequence
    • >TC008673 RA
      cgtcaaaag tgtgaatta tcaaacaat tatcttgtt 
      atcggccct agtttttgt tgattgttg aaaaatgag 
      ttctgaact tgataaatc ccaacacat cctgccctt 
      agaccaacc tattgtcac cctagaagt tgcctcagc 
      atttaaggg actgactga cacggagaa gagatacgc 
      tcatcacat aagtcaagc gtcctggac cgggggcct 
      aataacttt cttacaaac aagcccaga atctggacc 
      aatttttgt ccttttgca taaactatt ctcaggtct 
      taagcctca ggatttcaa aaaagtagc ccttcaggc 
      tgggtttag cgaagatga agccaaggc gttcctggt 
      ttacgcgtg tggaatctt cagtaacgc tgggaatta 
      taaggggtt tggggactc aaaattcgt cccggggat 
      agcacagga caggcttga gtcgctcct tgcggctac 
      tcctgtttg gcccaaaat taaagaatt gtgggctaa 
      ggtgaagaa cgctatgta tgaccttag ccctggtaa 
      gacatgcct agggtatgc cccccatgg gtgcaccac 
      ctacttgtc gaaaaactg cacgcctga ggacaatca 
      aagggtgca agactggat gaagaccca gaatattga 
      aggctacaa cacgcgttt gttcaaaac tgtgctccc 
      ggatgggaa gattgatta cgaaattcg gttggcttc 
      gaaagaaac cggcgaaat ctcgaaaga aacctacgg 
      gaacatgac gtttcgcct aactaaagg cgactattc 
      gccgattat tggaaaagt cgctgaaag tctggagga 
      agcttcaaa atatgctgc caatcccac tcaggccaa 
      aatgttaaa ggcctatgc ccagtcgtt tattacggg 
      ttctttgga ccttcacaa agatgggtc ccggcactg 
      gattaagga caagggccc agctgtgga aacctacat 
      tggcttcat agaaaccta cagagatcc ggccggaat 
      taggggcga atttgaagg gtttgtcgc gatcgtgaa 
      tcgcgcaat gtcggccaa attcacaac tttggtctc 
      caaagctga ggagttttt gcccttgtt gccgtggcc 
      taaagggtt cgaaaaaga caagttttt gaggcccga 
      ttttacctc gcttgatgt gctcacgtt tgcgtccag 
      cggaatacc ggccgggat taacattcc caactacga 
      cgatatccg gcaaagcga aggtttcaa gaacgtctc 
      tttaggaaa cgtcatacc ggccagtta tcaaatgtc 
      tgtgattcc attcttgaa cgagtctga tacacaatt 
      gatccaaaa atatcgcgt tgcttcctt cgaattaca 
      ggtgggcct tcacgaatt gttaggtca cggttccgg 
      caaaatatt ttatcgtgc cgccgatgg aacgttcaa 
      ttacccaaa cacactgtt ggacccctt gacggggaa 
      acctccatc cacgtacta cgagcctgg ggacaccta 
      cgattcgcg ttttggtcc aatgagctc ttcatacga 
      ggaatgccg agctgaagc cgttggttt atatttaag 
      tttggagcc ggcagtgtt gcaaatttt cggccacaa 
      aggccaaga agccgagga tgtcctcta tgtgaattg 
      gttgtcttt ggtttggaa cggcattgg ccgggcttt 
      ggaaacgtg ggatccgaa gcgaggctg gctccaagc 
      ccactccca ggcccgatt cgtgctggc gcgtgtttt 
      gattcaagc cggtgttgc gagtgtcac acagcccag 
      tgacggcga tcttttggt cactctaga ccgtgctgc 
      attgaaagg cgccggtcg gagtgccat cgctcattt 
      tctgctcca gttgcaagt ttacaaagc aacggcgaa 
      tatcgaagc agctcagaa tttgtacca acactattc 
      cgaagtgtg tgagccgtg gttgagctg gcgcgcgat 
      tgttttggc caataagca accaaggaa gatttttgc 
      gcaggctaa tactgtgtt gagttcgaa cgtcgaatt 
      gaaaacgta tggggaaac cccggaagg gatgatcca 
      gtcgtggac tgaacggtt cccgaatcc cgagccctt 
      gtatcaggc tttgataga tttaagtgc ctctaatga 
      gcactattt tatttaatt tttaataac gattaatta 
      ttagattat atacgatgc tttataaac aataaaatg 
      attctttgc ac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY