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Gene information
General information
TC006379 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_007423.3: 8182571..8186892
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
    TC006379
    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_01041

    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: 60.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006379 RA
      MGLDNPAFE SGNEVFTKT NGTVEDPEN KGDERERAQ 
      WGNGLEFLM SCVAMSVGL GNIWRFPFT AYENGGGAF 
      LIPYIIILT LIGRPLYYM EMSLGQFSN RGNIRFFKS 
      LSPYLKGVG YAQVIGAGF VATYYCCLM AITLFYLVN 
      SFTGDLPWS TCKEEWLAD LDKEHKQCV DAIATTSNN 
      TKANYTAVS SSEVYFTKE VLKEITDIS DGIGTPEWR 
      LTLCLLASW IITFLVSVK GVQSSGKAS YFLALFPYV 
      IMITLLIRA ATLEGAADG MYYFIKTDW AKLAEADVW 
      YAAVTQCFF SLNVGFGSI IMFASYNNF EHNINRDAL 
      IVTTLDTFT SLLSGATIF GILGNLAHN MGVTPDLVI 
      KSGGTGLAF ISYPDAIAK MEAVPWLFA ILFFFMLFV 
      LGVGSLVAL HGTVNTVVQ DLFPKLKSW QVSAYTASG 
      GFLIGLMYV TPGGQFMLN LVDHYAGTF LIFVFAVLE 
      VAAVAWVYG LENFCLDLE FMSKKKVSV YWRMTWGLI 
      TPALLFIIF VYFCVRNER LSYASYPYP DGVLAFGWA 
      ILGVSVAQF IMWIVYYIY KNRDYGFPE MVNKTFGHE 
      NWGPVGQTR RENWKKFKE DALQKRRNQ NKSFSRKYL 
      DALIGRQ
    CDS sequence
    • >TC006379 RA
      atgggtttg gacaatccg gctttcgag tccggtaat 
      gaggtcttt acgaagacc aatggaacg gttgaagac 
      ccggagaac aagggcgac gagcgcgaa agggcgcaa 
      tggggcaac gggctcgag ttcctcatg tcttgtgtg 
      gcaatgtca gtgggtttg ggcaacatt tggcgattt 
      cccttcaca gcgtacgaa aatggcgga ggcgctttc 
      ctcatccct tacataata atcctgaca ttaatcgga 
      cgcccttta tactacatg gaaatgtcc ctcggacag 
      ttttccaac cgcggcaac atcagattt ttcaaatcg 
      ctaagtccc taccttaaa ggagtcggg tatgcacaa 
      gtgatcgga gctggtttt gtggcaact tattactgt 
      tgccttatg gcaataacg ttattttat ttggtcaat 
      tcattcacc ggggattta ccctggagt acgtgtaaa 
      gaggaatgg ttggcagac ctggacaag gagcacaaa 
      caatgcgtc gatgctatt gccaccact agtaataat 
      acgaaagcg aattacact gcagtgagc tcgtccgaa 
      gtgtatttc acaaaagaa gttttgaaa gaaatcacg 
      gacattagc gacggtatt ggcacgcct gagtggcgt 
      ttaaccctc tgtttgctc gcctcctgg attatcaca 
      ttcctcgta tcagtcaaa ggggtccag agctcgggg 
      aaagcctca tatttcctc gccctcttc ccttacgtc 
      attatgata actctatta attcgagcc gccacgcta 
      gagggcgcc gctgacgga atgtactat tttatcaaa 
      actgattgg gcgaaactc gctgaagct gacgtgtgg 
      tacgccgca gtcactcag tgttttttc tcactgaat 
      gttggtttc ggctcaatt atcatgttc gcatcttat 
      aataatttc gaacataat ataaacagg gacgcgctc 
      attgtcacc acccttgac acgttcacg tccctgctg 
      tcgggagcc acaattttc gggatttta ggcaacctg 
      gcacacaat atgggggta acccccgat ttggttata 
      aagtcgggg ggcacaggc cttgcgttt atttcctac 
      cctgacgct attgccaaa atggaggcc gtgccgtgg 
      cttttcgcc atacttttc tttttcatg ttgtttgtt 
      ttgggggtt ggtagtctt gtggcactt catgggact 
      gtaaataca gtggtgcag gaccttttc cccaaactg 
      aaaagttgg caagtgtcg gcatacacg gccagtggt 
      ggttttctg attggttta atgtacgtc actccgggt 
      ggccaattt atgttgaat ctggtggat cactacgct 
      gggactttt ctcattttt gtgtttgcg gtgctggaa 
      gtggccgca gtggcgtgg gtttacgga cttgagaac 
      ttctgtctg gacttggag tttatgtcg aagaaaaaa 
      gtcagtgtt tactggaga atgacatgg gggctgata 
      accccagcg cttttgttc ataattttt gtttacttt 
      tgcgtgcga aatgaaaga ttatcgtac gcttcgtat 
      ccgtacccg gatggagtg ttagcgttc ggttgggct 
      attttgggc gtttcggtg gctcaattc atcatgtgg 
      atagtttac tacatttac aagaaccgt gattatgga 
      ttccctgaa atggtaaat aagaccttc gggcatgaa 
      aactggggt cccgttggt cagacccgc cgcgaaaat 
      tggaaaaaa ttcaaagag gacgcttta caaaagcgc 
      cgaaatcaa aataagtcc ttctcccgg aaatatttg 
      gatgctctc atcggtcgc caataa
    mRNA sequence
    • >TC006379 RA
      gtgtgtcag ataaaacac ctacagaat gagtgataa 
      caataagaa aatgggttt ggacaatcc ggctttcga 
      gtccggtaa tgaggtctt tacgaagac caatggaac 
      ggttgaaga cccggagaa caagggcga cgagcgcga 
      aagggcgca atggggcaa cgggctcga gttcctcat 
      gtcttgtgt ggcaatgtc agtgggttt gggcaacat 
      ttggcgatt tcccttcac agcgtacga aaatggcgg 
      aggcgcttt cctcatccc ttacataat aatcctgac 
      attaatcgg acgcccttt atactacat ggaaatgtc 
      cctcggaca gttttccaa ccgcggcaa catcagatt 
      tttcaaatc gctaagtcc ctaccttaa aggagtcgg 
      gtatgcaca agtgatcgg agctggttt tgtggcaac 
      ttattactg ttgccttat ggcaataac gttatttta 
      tttggtcaa ttcattcac cggggattt accctggag 
      tacgtgtaa agaggaatg gttggcaga cctggacaa 
      ggagcacaa acaatgcgt cgatgctat tgccaccac 
      tagtaataa tacgaaagc gaattacac tgcagtgag 
      ctcgtccga agtgtattt cacaaaaga agttttgaa 
      agaaatcac ggacattag cgacggtat tggcacgcc 
      tgagtggcg tttaaccct ctgtttgct cgcctcctg 
      gattatcac attcctcgt atcagtcaa aggggtcca 
      gagctcggg gaaagcctc atatttcct cgccctctt 
      cccttacgt cattatgat aactctatt aattcgagc 
      cgccacgct agagggcgc cgctgacgg aatgtacta 
      ttttatcaa aactgattg ggcgaaact cgctgaagc 
      tgacgtgtg gtacgccgc agtcactca gtgtttttt 
      ctcactgaa tgttggttt cggctcaat tatcatgtt 
      cgcatctta taataattt cgaacataa tataaacag 
      ggacgcgct cattgtcac cacccttga cacgttcac 
      gtccctgct gtcgggagc cacaatttt cgggatttt 
      aggcaacct ggcacacaa tatgggggt aacccccga 
      tttggttat aaagtcggg gggcacagg ccttgcgtt 
      tatttccta ccctgacgc tattgccaa aatggaggc 
      cgtgccgtg gcttttcgc catactttt ctttttcat 
      gttgtttgt tttgggggt tggtagtct tgtggcact 
      tcatgggac tgtaaatac agtggtgca ggacctttt 
      ccccaaact gaaaagttg gcaagtgtc ggcatacac 
      ggccagtgg tggttttct gattggttt aatgtacgt 
      cactccggg tggccaatt tatgttgaa tctggtgga 
      tcactacgc tgggacttt tctcatttt tgtgtttgc 
      ggtgctgga agtggccgc agtggcgtg ggtttacgg 
      acttgagaa cttctgtct ggacttgga gtttatgtc 
      gaagaaaaa agtcagtgt ttactggag aatgacatg 
      ggggctgat aaccccagc gcttttgtt cataatttt 
      tgtttactt ttgcgtgcg aaatgaaag attatcgta 
      cgcttcgta tccgtaccc ggatggagt gttagcgtt 
      cggttgggc tattttggg cgtttcggt ggctcaatt 
      catcatgtg gatagttta ctacattta caagaaccg 
      tgattatgg attccctga aatggtaaa taagacctt 
      cgggcatga aaactgggg tcccgttgg tcagacccg 
      ccgcgaaaa ttggaaaaa attcaaaga ggacgcttt 
      acaaaagcg ccgaaatca aaataagtc cttctcccg 
      gaaatattt ggatgctct catcggtcg ccaataacg 
      tttttatta aagttcctc acaaataaa tttcgtatt 
      ttgtgacag agtttgatg ttctcaaac gcgagttat 
      tgtactgtg atattacgc aatatacat ttttatttt 
      atcagataa tgactacat tacacgcta gtcgtaaaa 
      tgttatagc tttttacaa gctatatga tgtatttaa 
      ttgataaga ataaaacta aaccaggca a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY