Status
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Gene information
General information
TC003935 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: 27605122..27686235
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
    TC003935
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08050

    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)

    adult lethality - Number of animals showing the phenotype: 2 (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: % (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
    • >TC003935 RA
      MEPSSSTPS SPGNADSTF TSVKQEPTS NPASPLEAS 
      SPTSIALRN KEQHYVAAD SNSSSTTKS FVPCKVCGD 
      KASGYHYGV TSCEGCKYC RFKKCLSVG MSRDSVRYG 
      RVPKRSRER STEESSRVT TTDADQSDS ETKQLAVYD 
      VILTVSQAH HANCGYTEE HTRNLVRKP VVVPPSSPA 
      DSEVASSTA EALEQERCW LWQQFAANI TPSVQRVVE 
      FAKRVPGFC DLGQDDQLI LIKIGFFEI WLSHVARLT 
      SNTVMMFDD GTTVTRQQL EIMYDADFI SSVMHFANT 
      FNSLALNDT EVGLFSAVV LLTADRSGI TDVKSIEHH 
      QDKLIEALK VQVGRNHAN EPQLFSSLL IKLPELRNL 
      GAKHSAHLD WFRMNWTKL TLPPLFAEI FDIPKSEDD 
      LQ
    CDS sequence
    • >TC003935 RA
      atggagccc tccagctcg acgccgagc tcgccggga 
      aatgcagat tccaccttc accagtgtc aaacaagaa 
      ccgacttcg aatcctgcc agtcccctg gaggcctcc 
      agtccaact tctatagca ctaaggaac aaagaacaa 
      cattatgtg gcggcggac tccaacagt tcatcaacc 
      accaaatcg ttcgttcct tgtaaagtg tgcggtgac 
      aaggcttcc gggtaccat tatggtgtg acgtcgtgc 
      gaaggctgt aagtactgt aggttcaaa aaatgcctc 
      tccgttgga atgtccagg gattctgtg cggtacggc 
      cgcgttccg aaacgttcc cgcgaacgc agcaccgag 
      gagtcctcc cgtgtgacc accaccgac gccgaccaa 
      tccgactcc gaaacgaag caattggcc gtttacgac 
      gtcatcctc accgtgtcg caagcccac cacgccaat 
      tgcggctac accgaggag cacacccgc aacctggtg 
      cgcaaaccg gtggtggtg ccgccgtcc agtcccgcc 
      gacagcgag gtggcctcc tcgacggcc gaagccctc 
      gaacaggaa aggtgttgg ctgtggcag cagtttgcc 
      gccaacatt acgccgagc gtccaaagg gtggtggag 
      ttcgcgaag cgggtgcca ggcttctgc gacctgggg 
      caggacgac cagttgata ctcattaaa ataggtttc 
      ttcgagatt tggttgagt cacgtggcg agacttact 
      agcaatacg gtgatgatg ttcgacgat gggacgacg 
      gtgacacgc caacagctg gagattatg tatgatgct 
      gattttatt tcatcggtg atgcatttc gcgaatacg 
      ttcaattcg ttggctttg aatgatacg gaagtggga 
      ctgttttcg gctgttgtg ctgttgacg gctgatagg 
      agtgggatc accgatgtc aagtcgatt gaacatcac 
      caggataag cttatcgag gctctgaag gttcaggtg 
      ggtcgcaac cacgccaac gaaccgcaa ctgttctca 
      agtctgcta ataaaactg cccgaactg cgtaacttg 
      ggcgctaaa cattcagcc catttggac tggtttcga 
      atgaactgg actaagctg acactccca ccccttttc 
      gccgagata tttgacatt ccaaaatcg gaagacgat 
      ttgcagtga
    mRNA sequence
    • >TC003935 RA
      ccggcacaa aatcgaata gagcgagcg cgtcgtcga 
      acaaccaac cctaaaatg cagccccgt ggtggctcg 
      ctgcggtcc ggttcccgt tggctcgcc ggcatcgcc 
      gtcggggtg aagcaggat aatgcagtg tgagtccat 
      cgccagcga tggagccct ccagctcga cgccgagct 
      cgccgggaa atgcagatt ccaccttca ccagtgtca 
      aacaagaac cgacttcga atcctgcca gtcccctgg 
      aggcctcca gtccaactt ctatagcac taaggaaca 
      aagaacaac attatgtgg cggcggact ccaacagtt 
      catcaacca ccaaatcgt tcgttcctt gtaaagtgt 
      gcggtgaca aggcttccg ggtaccatt atggtgtga 
      cgtcgtgcg aaggctgta agtactgta ggttcaaaa 
      aatgcctct ccgttggaa tgtccaggg attctgtgc 
      ggtacggcc gcgttccga aacgttccc gcgaacgca 
      gcaccgagg agtcctccc gtgtgacca ccaccgacg 
      ccgaccaat ccgactccg aaacgaagc aattggccg 
      tttacgacg tcatcctca ccgtgtcgc aagcccacc 
      acgccaatt gcggctaca ccgaggagc acacccgca 
      acctggtgc gcaaaccgg tggtggtgc cgccgtcca 
      gtcccgccg acagcgagg tggcctcct cgacggccg 
      aagccctcg aacaggaaa ggtgttggc tgtggcagc 
      agtttgccg ccaacatta cgccgagcg tccaaaggg 
      tggtggagt tcgcgaagc gggtgccag gcttctgcg 
      acctggggc aggacgacc agttgatac tcattaaaa 
      taggtttct tcgagattt ggttgagtc acgtggcga 
      gacttacta gcaatacgg tgatgatgt tcgacgatg 
      ggacgacgg tgacacgcc aacagctgg agattatgt 
      atgatgctg attttattt catcggtga tgcatttcg 
      cgaatacgt tcaattcgt tggctttga atgatacgg 
      aagtgggac tgttttcgg ctgttgtgc tgttgacgg 
      ctgatagga gtgggatca ccgatgtca agtcgattg 
      aacatcacc aggataagc ttatcgagg ctctgaagg 
      ttcaggtgg gtcgcaacc acgccaacg aaccgcaac 
      tgttctcaa gtctgctaa taaaactgc ccgaactgc 
      gtaacttgg gcgctaaac attcagccc atttggact 
      ggtttcgaa tgaactgga ctaagctga cactcccac 
      cccttttcg ccgagatat ttgacattc caaaatcgg 
      aagacgatt tgcagtgac ttaagactt ttaatacta 
      ggaggtaga gtgtgttga cgagagaga gagagagag 
      aaagatttt ttggcttat tgcagtttt gttgtgatg 
      ccattaatc ttgcgctat aaatgtaat aaaataaat 
      gtggccgcg tccgcatgc ctcttcttg ctcaaataa 
      acgaacgaa cgaagcgaa cgagtgaag aaaaaaaac 
      gagatcaat gacagggtc ttcagcttt ttattatat 
      agtacttga aaaatttat tgtgtggtt tcgtttccg 
      aatacgtgg acgtatcgt atatataca tatcattgt 
      caaggtttc ttgtgtttt gcatacagg tgattcttt 
      caaggccca cattaaaga cttttaact tct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY