Status
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Gene information
General information
TC001546 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_007418.3: 3097595..3100644
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
    TC001546
    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_06904

    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: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: % (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
    • >TC001546 RA
      MFILVAFLI PLLGITGTI YLGIFCAIF GYFYYYVKR 
      QQNVWHQKG IKYCKPKFL LGSLEIIRS KSLAQIIQE 
      LYNAFPEER YHGFYQFLL PTLIIKDPD LIKQITIKD 
      FDHFVNHRR FVNADDDPF WNETWIHHY SPETKQQSK 
      QWTAKGEPV PKKAKTLRS AGKVSIGML RKNALARPE 
      TFQFILVFA RRDEKWRDM RATLSPSFT SSKMRIMFE 
      LMDECAREF VQHFKSQNS DTVELEMKD TLRRFTNDV 
      IASTAFGLK INSLKDRKN EFLLMGAAA TDFGYIRTM 
      KFLLYTLSP KLCQLLKMK IIPTKVADF FTVIIKDTI 
      KKRKEKNII RPDMIHLLL EAQKGRQHP EEHLDIDEG 
      FSSVSESKL TKPNEKLEI TTEDIISQA LIFFLAGFD 
      TVSTLLNFL FYELAVNPD VQTRLRTEI QSVDEKITY 
      ETLLKLKYL DMVMSEALR KWPPAIATD REVAKNYTI 
      EPTKPDEKP LLLEEGMLC SIPICAIHR DEKYYPEPE 
      KFDPERFND ENKHKINPL TFIPFGAGP RNCIGSRFA 
      LLESKLLVF HVVKNFEIV PIDKTLIPL VMDKYQINW 
      SVKGGTWLG LKNI
    CDS sequence
    • >TC001546 RA
      atgttcatt ttagtggct tttttaata ccactgtta 
      ggcataact ggtaccatt tatcttggt atattttgt 
      gccatcttt ggttatttc tattactac gtcaaaagg 
      cagcaaaat gtttggcac caaaaaggt atcaagtac 
      tgcaaaccc aaatttctt ttgggttca cttgaaata 
      attcgtagc aaaagtttg gctcaaata atacaagaa 
      ctctacaat gccttccct gaagaaagg taccatgga 
      ttttaccaa tttctactg ccaaccctg atcattaaa 
      gaccccgat ttgatcaaa caaatcacg attaaagat 
      tttgatcat tttgtcaac caccgaaga tttgtaaac 
      gccgatgat gatcccttc tggaatgag acgtggatt 
      caccattat tcacccgaa accaaacag cagtctaaa 
      caatggact gcaaagggg gaacccgtt ccgaagaaa 
      gcgaaaaca cttcggtcg gccggaaaa gtcagtatt 
      gggatgcta aggaaaaac gccctagct aggccggag 
      acttttcaa tttatcctc gtatttgca agaagggac 
      gaaaagtgg agagatatg cgggctact ctaagccct 
      tcgttcacc agcagcaaa atgaggatc atgttcgaa 
      ctaatggac gaatgtgct agagaattt gtccaacat 
      ttcaaaagt caaaactct gacaccgtc gagttggaa 
      atgaaagac actttgaga agattcacc aacgacgtg 
      attgctagc acagccttt ggcttgaaa attaactcg 
      ctgaaagac cgaaaaaac gaatttcta ctaatgggt 
      gcggccgcc accgacttt ggctacata agaactatg 
      aaattttta ttgtacacc ttaagccca aaactatgc 
      cagttacta aaaatgaaa attatccca accaaagtc 
      gccgatttt ttcaccgtg attataaaa gacacaatt 
      aagaaacgg aaagaaaaa aatattatt cgccccgac 
      atgatccac ttgctactg gaagcccaa aaaggacgc 
      caacacccg gaagaacac ttggatatt gacgaagga 
      ttctcttcc gtatccgaa tcaaaacta acgaaacca 
      aacgaaaaa ctagaaatc acaactgaa gacataata 
      tcccaagcg ttgattttc ttcctcgcg ggttttgac 
      acagtctcc accctcctc aacttccta ttctacgaa 
      ctcgcagtc aatccagac gtacaaacg cgactcaga 
      acggaaatc cagtcagtt gacgaaaaa atcacttat 
      gaaactctg ttaaaactg aaatatcta gacatggtg 
      atgtcggaa gccctccgg aaatggcca ccagctatc 
      gccacggac cgagaagtc gcgaaaaat tacacaatc 
      gaaccgaca aaacctgac gaaaaaccc ttgcttctg 
      gaggagggg atgctctgt tcgatacca atttgtgca 
      atacatcga gatgaaaaa tactatcct gagccggaa 
      aaatttgac ccggagagg ttcaacgat gagaataag 
      cacaaaata aaccccctc acttttata ccgtttggg 
      gcaggcccc cgaaattgt atcggttcc aggtttgcg 
      cttttggaa agcaagttg ttggttttt cacgtggtg 
      aaaaatttt gaaatcgtt ccaattgac aaaacccta 
      attccgcta gtgatggac aagtatcag atcaattgg 
      agtgtcaaa ggagggaca tggctagga ctgaagaat 
      atttag
    mRNA sequence
    • >TC001546 RA
      aattgcgca acaaattct tcttgctaa aacgttttt 
      ttccggtta aacaatttt aaaaaacat gttgcaaat 
      tttcataag actagataa tcattataa ctctttaaa 
      tgattagat aacacacca aatattaac aaaacgtcg 
      tttggtgat ctgatagtg gaacaccac tgtgcatca 
      tgttcattt tagtggctt ttttaatac cactgttag 
      gcataactg gtaccattt atcttggta tattttgtg 
      ccatctttg gttatttct attactacg tcaaaaggc 
      agcaaaatg tttggcacc aaaaaggta tcaagtact 
      gcaaaccca aatttcttt tgggttcac ttgaaataa 
      ttcgtagca aaagtttgg ctcaaataa tacaagaac 
      tctacaatg ccttccctg aagaaaggt accatggat 
      tttaccaat ttctactgc caaccctga tcattaaag 
      accccgatt tgatcaaac aaatcacga ttaaagatt 
      ttgatcatt ttgtcaacc accgaagat ttgtaaacg 
      ccgatgatg atcccttct ggaatgaga cgtggattc 
      accattatt cacccgaaa ccaaacagc agtctaaac 
      aatggactg caaaggggg aacccgttc cgaagaaag 
      cgaaaacac ttcggtcgg ccggaaaag tcagtattg 
      ggatgctaa ggaaaaacg ccctagcta ggccggaga 
      cttttcaat ttatcctcg tatttgcaa gaagggacg 
      aaaagtgga gagatatgc gggctactc taagccctt 
      cgttcacca gcagcaaaa tgaggatca tgttcgaac 
      taatggacg aatgtgcta gagaatttg tccaacatt 
      tcaaaagtc aaaactctg acaccgtcg agttggaaa 
      tgaaagaca ctttgagaa gattcacca acgacgtga 
      ttgctagca cagcctttg gcttgaaaa ttaactcgc 
      tgaaagacc gaaaaaacg aatttctac taatgggtg 
      cggccgcca ccgactttg gctacataa gaactatga 
      aatttttat tgtacacct taagcccaa aactatgcc 
      agttactaa aaatgaaaa ttatcccaa ccaaagtcg 
      ccgattttt tcaccgtga ttataaaag acacaatta 
      agaaacgga aagaaaaaa atattattc gccccgaca 
      tgatccact tgctactgg aagcccaaa aaggacgcc 
      aacacccgg aagaacact tggatattg acgaaggat 
      tctcttccg tatccgaat caaaactaa cgaaaccaa 
      acgaaaaac tagaaatca caactgaag acataatat 
      cccaagcgt tgattttct tcctcgcgg gttttgaca 
      cagtctcca ccctcctca acttcctat tctacgaac 
      tcgcagtca atccagacg tacaaacgc gactcagaa 
      cggaaatcc agtcagttg acgaaaaaa tcacttatg 
      aaactctgt taaaactga aatatctag acatggtga 
      tgtcggaag ccctccgga aatggccac cagctatcg 
      ccacggacc gagaagtcg cgaaaaatt acacaatcg 
      aaccgacaa aacctgacg aaaaaccct tgcttctgg 
      aggagggga tgctctgtt cgataccaa tttgtgcaa 
      tacatcgag atgaaaaat actatcctg agccggaaa 
      aatttgacc cggagaggt tcaacgatg agaataagc 
      acaaaataa accccctca cttttatac cgtttgggg 
      caggccccc gaaattgta tcggttcca ggtttgcgc 
      ttttggaaa gcaagttgt tggtttttc acgtggtga 
      aaaattttg aaatcgttc caattgaca aaaccctaa 
      ttccgctag tgatggaca agtatcaga tcaattgga 
      gtgtcaaag gagggacat ggctaggac tgaagaata 
      tttagtcag aaaccgtta ataaagtta attatgctg 
      t
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