Status
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Gene information
General information
TC004489 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: 3809491..3814978
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
    TC004489
    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_03768

    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: 90.0% (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


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


    adult lethality - Number of animals showing the phenotype: 4 (11 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: 80.0% (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: 8 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004489 RA
      MSGEETSAD RNVEIWKIK KLIKSLELA RGNGTSMIS 
      LIIPPKDQI SRVSKMLAD EFGTASNIK SRVNRLSVL 
      GAITSVQHR LKLYTKVPP NGLVIYCGT IVTDEGKEK 
      KVNIDFEPF KPINTSLYL CDNKFHTEA LTALLADDN 
      KFGFIVMDG NGALFGTLQ GNTREVLHK FTVDLPKKH 
      GRGGQSALR FARLRMEKR HNYVRKVAE VATQLFITN 
      DKPNIAGLI LAGSADFKT ELSQSDMFD PRLQAKVIK 
      LVDVSYGGE NGFNQAIEL AAESLQNVK FIQEKKLIG 
      RYFDEISQD TGKYCFGVE DTLRGLELG AVETLICWE 
      NLDIQRYVL KNHTTGTET VLHLTPEQE KDKSHFTDK 
      DSGVELELV ECQPLLEWL ANNYKNFGA TLEIITDKS 
      QEGSQFVRG FGGIGGLLR YKVDFQNLQ LDEELDNGD 
      DFDLDDY
    CDS sequence
    • >TC004489 RA
      atgtcagga gaggagact tcagccgac cgtaatgta 
      gaaatctgg aaaataaag aaactgatc aaaagtttg 
      gaactggcg agaggcaat ggaaccagc atgatttcg 
      ttaattata ccgcccaaa gatcaaatc tcgagagtt 
      agcaaaatg ttagctgat gaattcggc acagcctcc 
      aatatcaag tcgagagtt aacagattg tcagtcttg 
      ggggctatc acctcagtc cagcatcgc ctcaaactc 
      tacacaaaa gtgccgcca aacggctta gtcatctac 
      tgtggtacg atcgtgacg gatgaaggt aaagaaaag 
      aaagtcaac atcgatttc gaaccgttc aaacctatc 
      aatacctct ctgtactta tgcgacaat aagttccac 
      acggaagct ctaacggcc ttactggca gacgataat 
      aaattcggc tttatcgta atggacggt aacggagca 
      ttattcggt acattacaa ggcaacact cgagaggtc 
      ctccataag ttcaccgtc gatctacca aaaaagcac 
      ggacgtggt ggtcaatcc gcgctgcgt ttcgcccgt 
      ttgcgaatg gaaaaacgg cacaattac gtgcgaaaa 
      gtggccgaa gtggcaaca caactcttt atcaccaat 
      gataagccc aatatcgct ggcttgata ttggcggga 
      agtgctgat tttaagact gaacttagt caatccgat 
      atgtttgat cctagattg caagcgaaa gttataaaa 
      ttagtcgat gtgtcgtac gggggcgaa aacgggttc 
      aatcaagcg attgaactg gcggctgaa tcgctccaa 
      aacgtcaaa ttcatccaa gaaaagaaa ctgattggc 
      cgatacttt gacgaaatc agtcaagac accggcaaa 
      tactgtttc ggtgttgaa gatacgcta agagggctc 
      gaattaggt gctgttgaa acgctgatt tgttgggag 
      aatcttgat attcaacga tacgtcttg aagaatcac 
      acgactggt acagaaacc gtattacac ctaacacca 
      gaacaggaa aaggacaag tcacatttc actgacaaa 
      gacagcggc gtggaactg gaattggtg gagtgtcag 
      cctttgctt gaatggctt gcaaacaac tataagaat 
      tttggtgct actttagaa attattacc gataagtcg 
      caagaaggg tcgcagttc gttcgaggt tttggagga 
      attggaggt ttgttacga tacaaagtg gatttccag 
      aatttacag ttagatgaa gaactagac aacggcgat 
      gattttgat ctagacgat tattaa
    mRNA sequence
    • >TC004489 RA
      ccagtttga ttgaataaa tgggaaatt ccggtcgga 
      aagttggga aatcgtagg gtccttttc gaatttcct 
      tctgcgaga ggctgtcac ctgccagtt ttattttgt 
      gatcccctt tgtttcggc atgtgagtg actggaata 
      ttttttccc gcactaacc aagtctccg ggtcgcgca 
      tttctggtt ataaccagt taaagtggt taagttacc 
      tgcataacc agtgaaaag tgactcaat caagtagtt 
      cgtcggcat tggagaccg cgccatttt gcatcgggt 
      cacattttt cgtattttt agttcatac gaaatccag 
      cagaaatgt caggagagg agacttcag ccgaccgta 
      atgtagaaa tctggaaaa taaagaaac tgatcaaaa 
      gtttggaac tggcgagag gcaatggaa ccagcatga 
      tttcgttaa ttataccgc ccaaagatc aaatctcga 
      gagttagca aaatgttag ctgatgaat tcggcacag 
      cctccaata tcaagtcga gagttaaca gattgtcag 
      tcttggggg ctatcacct cagtccagc atcgcctca 
      aactctaca caaaagtgc cgccaaacg gcttagtca 
      tctactgtg gtacgatcg tgacggatg aaggtaaag 
      aaaagaaag tcaacatcg atttcgaac cgttcaaac 
      ctatcaata cctctctgt acttatgcg acaataagt 
      tccacacgg aagctctaa cggccttac tggcagacg 
      ataataaat tcggcttta tcgtaatgg acggtaacg 
      gagcattat tcggtacat tacaaggca acactcgag 
      aggtcctcc ataagttca ccgtcgatc taccaaaaa 
      agcacggac gtggtggtc aatccgcgc tgcgtttcg 
      cccgtttgc gaatggaaa aacggcaca attacgtgc 
      gaaaagtgg ccgaagtgg caacacaac tctttatca 
      ccaatgata agcccaata tcgctggct tgatattgg 
      cgggaagtg ctgatttta agactgaac ttagtcaat 
      ccgatatgt ttgatccta gattgcaag cgaaagtta 
      taaaattag tcgatgtgt cgtacgggg gcgaaaacg 
      ggttcaatc aagcgattg aactggcgg ctgaatcgc 
      tccaaaacg tcaaattca tccaagaaa agaaactga 
      ttggccgat actttgacg aaatcagtc aagacaccg 
      gcaaatact gtttcggtg ttgaagata cgctaagag 
      ggctcgaat taggtgctg ttgaaacgc tgatttgtt 
      gggagaatc ttgatattc aacgatacg tcttgaaga 
      atcacacga ctggtacag aaaccgtat tacacctaa 
      caccagaac aggaaaagg acaagtcac atttcactg 
      acaaagaca gcggcgtgg aactggaat tggtggagt 
      gtcagcctt tgcttgaat ggcttgcaa acaactata 
      agaattttg gtgctactt tagaaatta ttaccgata 
      agtcgcaag aagggtcgc agttcgttc gaggttttg 
      gaggaattg gaggtttgt tacgataca aagtggatt 
      tccagaatt tacagttag atgaagaac tagacaacg 
      gcgatgatt ttgatctag acgattatt aaattcctt 
      gtaaggaca attaaacca gcattttgt aggagtggt 
      gccgtttaa tataacgtg aagtggccg tattttgct 
      catattaaa tgtgttgtt acaaatgat tgatataca 
      taatttttt agttaattg ttaatttat gtaaatttc 
      tgatcatag gtgattttg tacaagcct tgttttatt 
      ttccagttt tgcgcagta aaatggatt tgagaattg 
      atacttttc ataattatt ttaaattca agggtcaaa 
      gttccccgg ggatatatt cttgtatgt ttgcatgat 
      ctgtgagtt tttaccaag atatttttt attttatca 
      aactaaatg gaattgttt aaagtacta aatataagt 
      ttttctttt taaataatt ggatttgtt ccttttgac 
      agttcctca acctccacg ttgtagtat agtagattt 
      acattcctt aaaaattca aaggcaact acttctatg 
      aaagcttgc gtctgtttt accagtttg tatcaagcc 
      gcataattt tacatacaa attgtctaa atacgaatt 
      tttacgtaa tagccactc attgtactt tttaacgaa 
      attaaggat cttgtgcag gggttagtg accgcagaa 
      gacccttaa ttgggccaa cgacctgtc accacatgt 
      tgtaatttt gtttgtaat aaaattacc accatacaa 
      gaaactgca gtttatttg ctgtttcta ccgagtgat 
      caagaatga ctgtcagct ggcaacaat tcagttgta 
      ttaaaacaa aattcaaag ctgccaact cacagtcct 
      tgattattt tgtat
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