Status
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Gene information
General information
TC003178 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: 693521..695298
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
    TC003178
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00526

    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: 20.0% (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: 1 (9 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    remarks: animals lost,
    Pupal morphology
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003178 RA
      MKSLVPVTV SLVLVMATA DDYLQERAA ILAQESTNF 
      LGGNNTLTV KEKTVNKII LEAKNTELS MAYNNSRDF 
      LPALHFPRS KNRINKSPV FSIIRKLPK GASLHTHLL 
      AAASVDYLI GNITYRENL YGGFVNNVF KLKFLQSPE 
      SDTRCNWTL VKELRDKET APVFDQWLR SLLTLTETY 
      PNVETVWDK FKKIFTTTY DMLAYRPVF EDYLYQVLR 
      ELHDDNVIY TELKGTIMP LYELDGTTH SKEEFFQIF 
      ANTVERFKS DFPAFTGAK YIHSIYRGV ENDVLKTAL 
      EEIIELRKH HPDLIAGFD FVGFEEEGC TLFDYHLLL 
      LEAGKHLNF FFHAGETNW FGHTDLNLL DAILLNTSR 
      IGHGFALVK HPKMLQLAK SRNIALEIC PISNQVLML 
      NQDHRNHPA AVLMALGFP VVIGNDDPS IWDATGLSY 
      DWFMVFMAM TPRDSGLEV LKQLAINSI VYSSMGVEE 
      KRRSLEVWE GQWDKFLDE ILKTN
    CDS sequence
    • >TC003178 RA
      atgaagtcg ctagtgcca gtaacagtg agcttagtc 
      ttagtgatg gcaacagcc gatgattat ttgcaagaa 
      cgtgcggcg attttggcc caagaatcg actaatttt 
      ctcggtggt aacaacaca ctaacagtg aaggaaaaa 
      accgtcaac aaaatcatc cttgaagct aaaaatacc 
      gaactttcg atggcgtac aacaattcg cgtgatttc 
      ctcccagcg ttgcatttt cctcgatcg aaaaatcgc 
      atcaacaaa tcgccagtg ttctccata atacggaaa 
      ctccccaaa ggagcctcc cttcacact catttactt 
      gccgcagct tcggttgat tacctaatc gggaacatt 
      acttaccgg gagaatctt tacggcggt tttgttaac 
      aatgtgttc aagttgaag tttttgcaa agtccggag 
      agtgacact aggtgtaac tggacgctg gttaaggag 
      ttacgagac aaggaaaca gcgccggtt tttgaccaa 
      tggctccgc tcactgcta actctcact gagacttat 
      cccaacgtt gaaacggtt tgggacaag tttaagaaa 
      attttcacc acaacttat gacatgttg gcgtatcgt 
      ccggtcttt gaggactac ctttaccag gttttgagg 
      gaactacat gacgataac gtcatttat acggaactc 
      aaaggcaca atcatgcct ttgtacgaa cttgacgga 
      acgacacac tcaaaagag gagtttttc caaattttt 
      gcaaacaca gttgagaga tttaaatca gattttccg 
      gcctttaca ggcgcaaaa tacattcac tcgatttat 
      cgtggtgtt gaaaacgat gtcctcaaa accgctttg 
      gaggaaata atcgaattg aggaaacac cacccggat 
      ttaatcgcc ggttttgat tttgttggt tttgaggag 
      gagggttgc accttattc gactaccac ttgctactt 
      ttggaggcc gggaaacac ctcaatttt tttttccac 
      gctggtgag accaactgg tttggtcac actgacctc 
      aacctactt gatgccatt cttcttaat acgtccagg 
      attggtcac gggtttgcc ctagtcaaa cacccaaag 
      atgttacaa ttggccaaa agcaggaac atagcgctt 
      gaaatatgc ccaatatct aatcaagtc ctgatgctg 
      aatcaggat cacaggaat catccagct gctgtttta 
      atggctttg ggtttcccg gttgtgata gggaatgat 
      gatccttca atttgggat gcgactggt ttgagttat 
      gactggttt atggttttt atggcaatg acgcccagg 
      gacagtggg cttgaggtt ttgaaacag ttggcgatt 
      aattccatt gtttatagt agtatgggg gtggaggag 
      aaaaggagg agcttggag gtgtgggag ggacagtgg 
      gataagttt ctagacgag attttaaaa actaattaa
    mRNA sequence
    • >TC003178 RA
      aagcagaga ttaatcagt ccgtcagtc acgttgtga 
      aacggatgg tggagagaa ttatttaaa aaattaatc 
      ggataaaaa taatctcat tgttttaac gtggacatc 
      tgtcgggac ttccccttt ttctgtaca agttgttga 
      cgctcagtt attgaaccc aacgctatg aagtcgcta 
      gtgccagta acagtgagc ttagtctta gtgatggca 
      acagccgat gattatttg caagaacgt gcggcgatt 
      ttggcccaa gaatcgact aattttctc ggtggtaac 
      aacacacta acagtgaag gaaaaaacc gtcaacaaa 
      atcatcctt gaagctaaa aataccgaa ctttcgatg 
      gcgtacaac aattcgcgt gatttcctc ccagcgttg 
      cattttcct cgatcgaaa aatcgcatc aacaaatcg 
      ccagtgttc tccataata cggaaactc cccaaagga 
      gcctccctt cacactcat ttacttgcc gcagcttcg 
      gttgattac ctaatcggg aacattact taccgggag 
      aatctttac ggcggtttt gttaacaat gtgttcaag 
      ttgaagttt ttgcaaagt ccggagagt gacactagg 
      tgtaactgg acgctggtt aaggagtta cgagacaag 
      gaaacagcg ccggttttt gaccaatgg ctccgctca 
      ctgctaact ctcactgag acttatccc aacgttgaa 
      acggtttgg gacaagttt aagaaaatt ttcaccaca 
      acttatgac atgttggcg tatcgtccg gtctttgag 
      gactacctt taccaggtt ttgagggaa ctacatgac 
      gataacgtc atttatacg gaactcaaa ggcacaatc 
      atgcctttg tacgaactt gacggaacg acacactca 
      aaagaggag tttttccaa atttttgca aacacagtt 
      gagagattt aaatcagat tttccggcc tttacaggc 
      gcaaaatac attcactcg atttatcgt ggtgttgaa 
      aacgatgtc ctcaaaacc gctttggag gaaataatc 
      gaattgagg aaacaccac ccggattta atcgccggt 
      tttgatttt gttggtttt gaggaggag ggttgcacc 
      ttattcgac taccacttg ctacttttg gaggccggg 
      aaacacctc aattttttt ttccacgct ggtgagacc 
      aactggttt ggtcacact gacctcaac ctacttgat 
      gccattctt cttaatacg tccaggatt ggtcacggg 
      tttgcccta gtcaaacac ccaaagatg ttacaattg 
      gccaaaagc aggaacata gcgcttgaa atatgccca 
      atatctaat caagtcctg atgctgaat caggatcac 
      aggaatcat ccagctgct gttttaatg gctttgggt 
      ttcccggtt gtgataggg aatgatgat ccttcaatt 
      tgggatgcg actggtttg agttatgac tggtttatg 
      gtttttatg gcaatgacg cccagggac agtgggctt 
      gaggttttg aaacagttg gcgattaat tccattgtt 
      tatagtagt atgggggtg gaggagaaa aggaggagc 
      ttggaggtg tgggaggga cagtgggat aagtttcta 
      gacgagatt ttaaaaact aattaaaaa aactactag 
      gataaactt atgtaacgt ttattgtat ttctggtgt 
      tgttattaa ttctgattc ttgagtctc tgtaattct 
      aa
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