Status
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Gene information
General information
TC009342 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: 590225..592503
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
    TC009342
    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_01531

    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: 100.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection


    Adult morphology
    motility decreased - (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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009342 RA
      MFGGGRAPI LVLSQNTKR ESGRKVQVE NINAGKQIA 
      DVIRTCLGP QAMLKMLMD PMGGIVMTN DGNAILREI 
      TVQHPAAKS MIEIARTQD EEVGDGTTS VIVLAGEML 
      AAAEQFLHQ NMHPTVIIR QYKEALEDM VTMLEGPLS 
      VPVDRNDKA ALANVVKGC VGTKFIGRW SDLAVNIAL 
      DAVNTVLLE ENGRTEVDI KRYAKVEKI PGGSVEESQ 
      ILRGVMVNK DVTHPKMRR YIQNPRIIL LDCSLEYKK 
      GESQTNVEI TAETDFTRL LELEEEHVR RQCDDIIAL 
      KPDVVFTEK GVSDLAQHF LLKAGISAI RRLRKSDNN 
      RIARACGAT IVNRTEELQ ESDVGTGAG LFEIKKLGD 
      EYFCYITEC KNPKACTIL LRGASKDIL NETERNLQD 
      ALQVARNIM LLPRLVPGG GAIEMAVAQ KLLQKATHG 
      PYRALAHAL EIIPKTLAQ NCGANTIRT LTALRAKHA 
      NHTDVNSPC TWGIDGESG ELVEQTSNG LWEPLAVKL 
      QTYKTAVET AILLLRIDD IVSGSKKKG DKEPSKPAD 
      LQKEEQQQH E
    CDS sequence
    • >TC009342 RA
      atgtttggc ggtggacgt gccccaatt ttggtttta 
      agtcaaaac acgaagcgt gagtcgggc cgcaaggtt 
      caggtggag aacataaac gccggaaag caaatagcg 
      gacgttatc cggacatgt ctgggccca caagccatg 
      ctgaagatg ctcatggac cccatgggg ggcatcgtc 
      atgacaaac gacggcaat gcgattctt cgcgaaatc 
      actgtccag cacccagct gccaagagc atgattgaa 
      attgcgaga actcaagat gaggaggtt ggtgatggg 
      accacttct gttatcgtt ctggcgggt gagatgttg 
      gcggctgct gagcaattc ttgcaccag aatatgcac 
      ccgactgtt atcatcaga cagtataaa gaagcgcta 
      gaagacatg gtgactatg ttggagggg cctttgagt 
      gtgcccgtg gaccggaac gataaagcg gccttggct 
      aatgtcgtg aaaggttgt gtaggaacg aaatttata 
      ggtcgctgg tcggactta gctgtaaat attgctctg 
      gacgctgtt aatacagtt ctgttggaa gaaaacggt 
      cgtacagag gttgatatt aagagatat gccaaggtg 
      gagaagatt ccgggagga tcggttgag gagtctcaa 
      attttaagg ggggttatg gtcaataag gacgtcacg 
      catcccaaa atgagaaga tatattcag aaccctcga 
      atcatcctt ttggactgt tcgttggaa tacaaaaag 
      ggcgaatct caaaccaac gttgaaatc actgccgaa 
      acggatttt actcgtctg cttgaactg gaggaagag 
      cacgtgcgc cgtcaatgc gacgacatc atcgccctc 
      aaacctgac gtggttttc accgaaaaa ggcgtttct 
      gacttggct cagcacttc ctcctcaaa gctggcatt 
      agtgcaatt cgtcgcttg cgcaaatct gacaataac 
      cgcatagct cgtgcttgt ggcgccaca atcgttaat 
      cgaacggaa gaattacaa gagtcggat gtgggaaca 
      ggtgctgga ctattcgaa atcaaaaaa ttgggcgat 
      gagtatttt tgttacatt accgaatgt aaaaaccca 
      aaagcttgt actattctt ctgcgaggt gctagtaaa 
      gacatactt aatgaaacc gaacgtaat ttacaagat 
      gcattgcaa gtagcgcgt aatataatg ttattgcct 
      cggttggtg ccaggagga ggcgcaatc gagatggcc 
      gtggcccaa aaactgctg cagaaagca acccatgga 
      ccgtacagg gctttagcg catgcgctt gagataatt 
      ccgaagact ttggctcag aattgcggg gctaataca 
      attcggact ttgacggct ttgagggcg aaacatgcg 
      aaccatacg gatgtcaat agtccctgt acgtggggg 
      atagatggg gagagtgga gagttggta gaacagact 
      agtaatggg ttgtgggaa ccactcgct gttaagttg 
      caaacgtac aaaactgca gttgagacg gcaattctg 
      ttgttgcgt atcgatgat attgtctca ggttcaaag 
      aagaagggc gataaggaa ccgtcgaaa ccggccgat 
      ttacagaaa gaggaacaa caacaacat gaataa
    mRNA sequence
    • >TC009342 RA
      acaccgact tctaccaaa tcggccgag gttgtgaaa 
      ttttgacag aaggttttg cattgtccc ggtgttctt 
      tcagcaaaa aagcgaaat gtttggcgg tggacgtgc 
      cccaatttt ggttttaag tcaaaacac gaagcgtga 
      gtcgggccg caaggttca ggtggagaa cataaacgc 
      cggaaagca aatagcgga cgttatccg gacatgtct 
      gggcccaca agccatgct gaagatgct catggaccc 
      catgggggg catcgtcat gacaaacga cggcaatgc 
      gattcttcg cgaaatcac tgtccagca cccagctgc 
      caagagcat gattgaaat tgcgagaac tcaagatga 
      ggaggttgg tgatgggac cacttctgt tatcgttct 
      ggcgggtga gatgttggc ggctgctga gcaattctt 
      gcaccagaa tatgcaccc gactgttat catcagaca 
      gtataaaga agcgctaga agacatggt gactatgtt 
      ggaggggcc tttgagtgt gcccgtgga ccggaacga 
      taaagcggc cttggctaa tgtcgtgaa aggttgtgt 
      aggaacgaa atttatagg tcgctggtc ggacttagc 
      tgtaaatat tgctctgga cgctgttaa tacagttct 
      gttggaaga aaacggtcg tacagaggt tgatattaa 
      gagatatgc caaggtgga gaagattcc gggaggatc 
      ggttgagga gtctcaaat tttaagggg ggttatggt 
      caataagga cgtcacgca tcccaaaat gagaagata 
      tattcagaa ccctcgaat catcctttt ggactgttc 
      gttggaata caaaaaggg cgaatctca aaccaacgt 
      tgaaatcac tgccgaaac ggattttac tcgtctgct 
      tgaactgga ggaagagca cgtgcgccg tcaatgcga 
      cgacatcat cgccctcaa acctgacgt ggttttcac 
      cgaaaaagg cgtttctga cttggctca gcacttcct 
      cctcaaagc tggcattag tgcaattcg tcgcttgcg 
      caaatctga caataaccg catagctcg tgcttgtgg 
      cgccacaat cgttaatcg aacggaaga attacaaga 
      gtcggatgt gggaacagg tgctggact attcgaaat 
      caaaaaatt gggcgatga gtatttttg ttacattac 
      cgaatgtaa aaacccaaa agcttgtac tattcttct 
      gcgaggtgc tagtaaaga catacttaa tgaaaccga 
      acgtaattt acaagatgc attgcaagt agcgcgtaa 
      tataatgtt attgcctcg gttggtgcc aggaggagg 
      cgcaatcga gatggccgt ggcccaaaa actgctgca 
      gaaagcaac ccatggacc gtacagggc tttagcgca 
      tgcgcttga gataattcc gaagacttt ggctcagaa 
      ttgcggggc taatacaat tcggacttt gacggcttt 
      gagggcgaa acatgcgaa ccatacgga tgtcaatag 
      tccctgtac gtgggggat agatgggga gagtggaga 
      gttggtaga acagactag taatgggtt gtgggaacc 
      actcgctgt taagttgca aacgtacaa aactgcagt 
      tgagacggc aattctgtt gttgcgtat cgatgatat 
      tgtctcagg ttcaaagaa gaagggcga taaggaacc 
      gtcgaaacc ggccgattt acagaaaga ggaacaaca 
      acaacatga ataaactaa ccaaccggc gtttcattt 
      ctaatttgt agctttgtt tccggatta atatttaac 
      ttacaattg tattacacg ttttgctaa taaagctat 
      ttacactaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY