Status
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Gene information
General information
TC001877 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_007416.3: 272810..278309
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
    TC001877
    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_09559

    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: 2 (3 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): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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
    • >TC001877 RA
      MQTNRTKDC DTNDIHFYN TTLPQCTLC TDAKPNHQR 
      SNVDGKPER NFNKFNNEN REERNNRRN REERTFNGP 
      TENREREER PRRENNGEN FENRNRERG ERGGRALGN 
      KPAGPRGPR RNFDDRRGK REFDRQSGS DKTGVKPID 
      KRDGAGAHN WGSHKDVIE EADKPNDAD QSWSENDRP 
      ETNAAPETK EETENETPV EEEPKELTL DEWKAQRAG 
      RAKPQFNIR KAGEGVDPS QWKKMYELR KKENESESE 
      DEEYDAAEY PQHVVPVVE EVKGLVREE IVRLNVVAL 
      ALELELAQP PLGKDPNGV IVMNRLMKE QRTVEHPKL 
      MTNVIFLRS VKSHCQFCL
    CDS sequence
    • >TC001877 RA
      atgcaaaca aatcgcacg aaagattgt gatacgaac 
      gatattcat ttttacaat acaacgctc ccgcagtgt 
      acattgtgc actgacgct aaacccaac catcaaagg 
      tcaaacgtt gacggcaaa ccggaacgc aacttcaac 
      aaattcaat aacgaaaac cgagaggaa cgcaataac 
      aggagaaac cgagaagag aggactttc aacggaccc 
      accgagaac cgagaacgc gaggagagg ccccgacga 
      gagaataac ggcgaaaac ttcgagaat cgtaatcgc 
      gagcgtggc gaacgcggt ggtagggca ttaggtaac 
      aaaccggcg ggtcctaga ggccctaga cggaatttc 
      gacgacaga cgcggcaaa cgagaattc gacaggcaa 
      agcggatcg gataagaca ggagttaaa ccaatcgac 
      aaacgtgat ggagctggt gctcataac tggggatct 
      cataaggat gtgattgag gaagccgat aagccgaat 
      gacgctgat caaagttgg agcgaaaac gaccgacct 
      gaaacgaat gccgccccc gaaacgaag gaagaaacg 
      gagaatgag acccccgtc gaggaagag ccgaaagag 
      ttgactttg gacgaatgg aaggcccaa cgcgctggt 
      cgcgccaag ccgcagttt aatattagg aaggctgga 
      gaaggagtg gacccgagc cagtggaag aaaatgtac 
      gaattacga aaaaaagaa aacgaatct gaatccgaa 
      gacgaggaa tacgacgct gccgaatac ccccaacac 
      gtggtgccg gtcgtggaa gaggtcaaa ggtctggtc 
      cgagaggaa atcgtccga ctcaacgtg gtggcactg 
      gcactggaa ctggaactg gcgcagccc ccgctgggg 
      aaagacccg aacggcgtt atcgtgatg aacaggctg 
      atgaaagaa cagagaacc gtcgagcac ccaaagttg 
      atgacgaac gtgattttc cttcgctcg gttaaaagt 
      cactgtcaa ttttgtttg taa
    mRNA sequence
    • >TC001877 RA
      gtggcggca gcaccggaa cgccagaca ttctcaaaa 
      tgtttagat aagagcgca atttcacaa atttctttc 
      attaaattg aattaatgc aaacaaatc gcacgaaag 
      attgtgata cgaacgata ttcattttt acaatacaa 
      cgctcccgc agtgtacat tgtgcactg acgctaaac 
      ccaaccatc aaaggtcaa acgttgacg gcaaaccgg 
      aacgcaact tcaacaaat tcaataacg aaaaccgag 
      aggaacgca ataacagga gaaaccgag aagagagga 
      ctttcaacg gacccaccg agaaccgag aacgcgagg 
      agaggcccc gacgagaga ataacggcg aaaacttcg 
      agaatcgta atcgcgagc gtggcgaac gcggtggta 
      gggcattag gtaacaaac cggcgggtc ctagaggcc 
      ctagacgga atttcgacg acagacgcg gcaaacgag 
      aattcgaca ggcaaagcg gatcggata agacaggag 
      ttaaaccaa tcgacaaac gtgatggag ctggtgctc 
      ataactggg gatctcata aggatgtga ttgaggaag 
      ccgataagc cgaatgacg ctgatcaaa gttggagcg 
      aaaacgacc gacctgaaa cgaatgccg cccccgaaa 
      cgaaggaag aaacggaga atgagaccc ccgtcgagg 
      aagagccga aagagttga ctttggacg aatggaagg 
      cccaacgcg ctggtcgcg ccaagccgc agtttaata 
      ttaggaagg ctggagaag gagtggacc cgagccagt 
      ggaagaaaa tgtacgaat tacgaaaaa aagaaaacg 
      aatctgaat ccgaagacg aggaatacg acgctgccg 
      aataccccc aacacgtgg tgccggtcg tggaagagg 
      tcaaaggtc tggtccgag aggaaatcg tccgactca 
      acgtggtgg cactggcac tggaactgg aactggcgc 
      agcccccgc tggggaaag acccgaacg gcgttatcg 
      tgatgaaca ggctgatga aagaacaga gaaccgtcg 
      agcacccaa agttgatga cgaacgtga ttttccttc 
      gctcggtta aaagtcact gtcaatttt gtttgtaat 
      tgacgccgt ttcacacta caaaaactg tacatttaa 
      taaaacatt tgaaatact ttgttacat tggtacaaa 
      ttgttcaat atccggaat tctttaggt ggtttttga 
      ttcataatt cagtgaaaa ctgtgaacc caagagggt 
      gatggttac tagtcagtg ttaaactgc attgttaac 
      ttttttata tgattgtat ttggctgct cacacttgt 
      cctcttaat attgtgtag taacttaat aaacagtac 
      cagtcaatt ggtatttca ttaattgat tttcagata 
      gcttttcat cagttgtat aagactaag cggtttacg 
      tatgctatt tgtaaggaa aaattcacg tgtttgcta 
      catgtttaa ctgaatgtc caaaacact tgaattttc 
      tttcatcgt ttgtaaatt attgttttt aaatgactg 
      acgtttgcg atatagaat acaccaggg ttcttaaaa 
      gtacttcaa aaaggtttt ttttaagag tggtaggtt 
      tttttaatt gtagcgtta attttcaat actggtgtt 
      ccttaatat tagctgtaa atattgaga tacatgacc 
      atacgataa gtgtttgta aaattggtc gatcgagag 
      ggtatgcat atgtacatt tcagtaacg tcttatttt 
      taaaacact attttttac ttgaaccat tttagtgat 
      tattgttaa cacaggata aggttgtgt ttgccggca 
      aaatcttat ctcttggtg ctaaaggct tacatcata 
      ccctttttt agtaagtgg cttaatgca ttgttttta 
      tgtgaagta taattattg ttttaatat attatttca 
      tttgtcaac aactgacca ttagtgtat gcgtattaa 
      ttgattttg ttgagtttt tctaggtta tttaattag 
      tcaaattat ctaacataa tttgcattt ttttggttt 
      tgcgtaaca atagttcat gcttcattt caaaaacat 
      taaaataag tttgttgct atttttgca ttgtaaaga 
      agtgaccct ttaagttct gttagttta taacatttt 
      ttcttttca atataaatt tgtaaaaat tgtagttga 
      gtctcaatt gattgaatc gtggttcaa agactttgc 
      atgggatat cacagagta ctgaataca gcgattatt 
      aaatttgca ctaaaatag cgactgtat catacagat 
      taaatacaa tcagtggtt tatatatag aaatgctaa 
      taaaactgt gttttattg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY