Status
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Gene information
General information
TC003492 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: 5931420..5939097
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
    TC003492
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06932

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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
    • >TC003492 RA
      MSNKRKMDE SEDPSVLFL KSTRFWIQR VFVPIVVCI 
      GVGGNTVTV MVLTRKRMR CSTNIYLTA LAVADIIYL 
      LFVFVLSFS VYDNINDRK YELFWRFFG LTHWLCDAA 
      SNASVWLTV SFTLERYIA VCHPIKGKV LCTENRAKI 
      IITGIAIFC ILSTLSTTF EYELAMKEK CVRNCTQEE 
      LKNRQHVPG KCFQNVTFH HLPNHNIVV SNLQSHESD 
      DSNEKLIRE IYTSLEPAI NKLLPVNCT SHPHIIYVP 
      VQMFNKTTP KKINTNLID GSVRNNSEV SKDRTDHAH 
      LVPTGKLIT NDTSDNDTC CLKKFTVST VLTNLGKNK 
      NYKIFISWF PALCFALIP LILIATFNC FLVHAVYKS 
      QSRRRKMTN SQETVSMSN ENRITVMLI GVVFLFLIC 
      QTPTASFLI YSNFYEAED LATENIHRA LGNIFNFLV 
      NINAATNFI MYCILSKKY RTTFRTLFC GRRKNRQDT 
      LILTDTRTR YSSFNNGLR RNVSEYHTP RNLEKGKAL 
      EQTHYSAL
    CDS sequence
    • >TC003492 RA
      atgagcaat aagcgtaaa atggatgaa agcgaggac 
      ccctctgtg ctgttccta aaatccacc agattttgg 
      attcagcgg gtgtttgtg cccattgtg gtctgcata 
      ggagttggg ggaaacacc gtgaccgtc atggtgctc 
      acaaggaaa cgtatgagg tgctcgacg aatatctac 
      cttactgct cttgcagtt gctgacatt atttattta 
      ttattcgtc ttcgtgctg tcattctcg gtctatgac 
      aacatcaac gaccgaaag tatgaactt ttttggagg 
      tttttcgga ttgactcac tggctgtgt gacgctgca 
      agtaacgca tcagtatgg ttgacggta tctttcact 
      ttggaacgg tacatagca gtttgccat ccaattaag 
      ggtaaagtg ctgtgcacc gagaaccgc gcaaaaatc 
      atcataaca ggaatcgcg atcttctgc attctgtcc 
      acgctgtcg acgacgttc gagtacgag ctggcgatg 
      aaggaaaag tgcgtccgc aactgcacg caggaagag 
      ctgaagaac aggcaacac gtccccggt aaatgcttc 
      caaaatgtc accttccat catctgccg aatcataac 
      atagtcgtg agcaacctc cagagccac gaaagtgat 
      gattcgaac gaaaagcta attagagag atctacact 
      agtttagaa ccagccatc aacaaactg ctccctgtc 
      aattgcacg tctcatcct catatcatc tacgtccca 
      gtccaaatg tttaacaaa accactccc aaaaaaatt 
      aatactaat cttatagac ggaagcgtt cgtaataac 
      agtgaagtg tcaaaggac cggactgac catgcccat 
      ttagtgccc acgggtaaa ttgataaca aatgacact 
      tccgacaat gacacctgt tgtttgaag aaattcacg 
      gttagcacg gtgctgacc aatctaggc aagaacaag 
      aattacaag atttttatt tcgtggttt cctgcattg 
      tgcttcgct cttattccc ttgattctc atcgccact 
      ttcaactgc tttctggta cacgctgta tacaagtct 
      cagagccgc aggaggaaa atgaccaac tcacaggaa 
      accgtttcg atgtcgaat gaaaaccgc ataacggtc 
      atgttaatt ggcgtagtg tttctattt ttaatctgc 
      caaacgccg actgcttcc ttcctgatc tacagcaac 
      ttctacgaa gcggaagac ttggccacg gagaacatc 
      caccgtgct ttaggcaac atttttaac tttctcgta 
      aacataaat gcggccacg aatttcatt atgtactgc 
      attttgtcg aaaaagtac agaaccaca tttagaacc 
      ttgttctgt ggccgcaga aaaaacaga caagacacg 
      ttaatctta acagacact agaacgaga tactcttct 
      tttaacaat ggtttgaga aggaacgtt tccgaatat 
      cacactcca agaaatttg gagaaaggt aaggccctc 
      gagcaaacc cattattcg gctttgtga
    mRNA sequence
    • >TC003492 RA
      gtgtctcgg aacttgtga gcttatgac tccctaagc 
      tgtgatagt ggccgtaac aatgacacc tcgtcaatt 
      gtgactcga acgtgccca gtgtttgac ttgatttaa 
      actgtatct attcaaaat gtgcgctgc ggaagttcc 
      agtgaaaaa aatgtgaag aatcagata agagcgatg 
      agcaataag cgtaaaatg gatgaaagc gaggacccc 
      tctgtgctg ttcctaaaa tccaccaga ttttggatt 
      cagcgggtg tttgtgccc attgtggtc tgcatagga 
      gttggggga aacaccgtg accgtcatg gtgctcaca 
      aggaaacgt atgaggtgc tcgacgaat atctacctt 
      actgctctt gcagttgct gacattatt tatttatta 
      ttcgtcttc gtgctgtca ttctcggtc tatgacaac 
      atcaacgac cgaaagtat gaacttttt tggaggttt 
      ttcggattg actcactgg ctgtgtgac gctgcaagt 
      aacgcatca gtatggttg acggtatct ttcactttg 
      gaacggtac atagcagtt tgccatcca attaagggt 
      aaagtgctg tgcaccgag aaccgcgca aaaatcatc 
      ataacagga atcgcgatc ttctgcatt ctgtccacg 
      ctgtcgacg acgttcgag tacgagctg gcgatgaag 
      gaaaagtgc gtccgcaac tgcacgcag gaagagctg 
      aagaacagg caacacgtc cccggtaaa tgcttccaa 
      aatgtcacc ttccatcat ctgccgaat cataacata 
      gtcgtgagc aacctccag agccacgaa agtgatgat 
      tcgaacgaa aagctaatt agagagatc tacactagt 
      ttagaacca gccatcaac aaactgctc cctgtcaat 
      tgcacgtct catcctcat atcatctac gtcccagtc 
      caaatgttt aacaaaacc actcccaaa aaaattaat 
      actaatctt atagacgga agcgttcgt aataacagt 
      gaagtgtca aaggaccgg actgaccat gcccattta 
      gtgcccacg ggtaaattg ataacaaat gacacttcc 
      gacaatgac acctgttgt ttgaagaaa ttcacggtt 
      agcacggtg ctgaccaat ctaggcaag aacaagaat 
      tacaagatt tttatttcg tggtttcct gcattgtgc 
      ttcgctctt attcccttg attctcatc gccactttc 
      aactgcttt ctggtacac gctgtatac aagtctcag 
      agccgcagg aggaaaatg accaactca caggaaacc 
      gtttcgatg tcgaatgaa aaccgcata acggtcatg 
      ttaattggc gtagtgttt ctattttta atctgccaa 
      acgccgact gcttccttc ctgatctac agcaacttc 
      tacgaagcg gaagacttg gccacggag aacatccac 
      cgtgcttta ggcaacatt tttaacttt ctcgtaaac 
      ataaatgcg gccacgaat ttcattatg tactgcatt 
      ttgtcgaaa aagtacaga accacattt agaaccttg 
      ttctgtggc cgcagaaaa aacagacaa gacacgtta 
      atcttaaca gacactaga acgagatac tcttctttt 
      aacaatggt ttgagaagg aacgtttcc gaatatcac 
      actccaaga aatttggag aaaggtaag gccctcgag 
      caaacccat tattcggct ttgtgatgc tcaaacgga 
      ccgtttgtg tgctaataa tttgtgctt ataagt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY