Status
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Gene information
General information
TC003654 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: 11618865..11628889
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
    TC003654
    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_09784

    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: 30.0% (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


    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: % (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
    • >TC003654 RA
      MGSLMKKSL GGSIHRIRE FELEKVNLA EEFDILQIV 
      GEGWFGKIL LVEHKATDT EMVLKALPK PYTSIKDFY 
      REFHYGLHL GAHKNIITT YDVAFETAG FYVFSQEYA 
      PLGDLTSNV SDTGIGELH TKRVAKQLS AALEHLHTR 
      DLVHRDVKL DNILVFKSD FSRIKLCDF GETRRAGSV 
      VMRRNEWLP YAPPEVLQV ATDGSYMTN TSHDVWQFG 
      IVIFVCLTG CLPWQKAAP DDPRYSRYI SWQSSTIPL 
      KRQPKLFKL VSSKAQKLF KKYLEPKPE KRPAGLAEV 
      HRYLEDRWM SKGGMEKTS ELPDEEEGL CPSMYSFHS 
      SPEEKNKLL FTLTQYGLE TTVDRTAKK DRIRQWIQS 
      SVIEEENEE EIEALSDEE IGPEGERNE SRGPVSAPK 
      TNGLETDKT SRRRASTLS LRKVPDFYI PPIDPRIPL 
      EEQKEKNVS RSQIIKTKD KPKDEFSIS KALPFQNLQ 
      VVNSLSSLD SSDSSTVKH HKINVQLPQ SEKYVYGAT 
      PNGVSNGVR RSPPVNVRG AEKMYRAYS ATEVRGNGH 
      YSRK
    CDS sequence
    • >TC003654 RA
      atgggaagt ttgatgaaa aaatccctg ggtggaagc 
      atacatcga atccgcgag tttgaactt gaaaaagta 
      aatttagcc gaagaattc gacattttg caaatcgtg 
      ggcgaagga tggttcggc aagatcctc ctggtggag 
      cacaaggcc accgacacc gagatggtg ctcaaggcc 
      ctccccaag ccctacacc tccatcaag gacttctac 
      agggagttc cactacggc ctgcacctg ggggcgcac 
      aagaacatc atcacgacc tacgacgtg gccttcgaa 
      acggccgga ttctacgtc ttctcgcag gaatacgcc 
      cctctgggc gatttgact tccaacgtc tccgacacc 
      ggcatcggg gagctgcac acgaagcgc gtggcgaaa 
      caactctcc gccgctttg gagcacctc cacacgcgt 
      gacctggtg caccgcgac gtgaagttg gacaatatc 
      ctagtgttt aagtcggac ttttcgcgt atcaaactg 
      tgtgatttc ggagagacg cgacgtgct ggttcggtg 
      gtgatgcga cggaacgag tggctgccc tatgcgccc 
      ccggaggtg ctccaagtc gccacagac gggagctac 
      atgaccaac actagtcac gacgtttgg cagtttgga 
      attgtgata tttgtgtgt ttgaccggg tgtcttcca 
      tggcagaaa gccgcccct gacgacccc cggtactcc 
      aggtatatt tcctggcaa agcagcact attccactg 
      aaaagacag ccaaaattg tttaaactg gtgtcgtcc 
      aaagcccaa aaactcttc aaaaaatat ttagaacca 
      aaacccgag aaaagacca gcggggctt gccgaagtc 
      catcgatat ttggaagac cgctggatg tccaaaggc 
      gggatggag aaaacgagc gagttgccg gatgaagag 
      gaggggctt tgcccctca atgtacagc ttccacagc 
      agtccggag gaaaaaaat aaactactc ttcacccta 
      acccagtac ggacttgag acaaccgtt gaccgaacg 
      gccaaaaag gaccgaatc cgccagtgg atccagtcg 
      agtgtcatt gaggaggaa aacgaagaa gaaatcgaa 
      gcactgtcc gatgaagaa atcggccct gagggggag 
      cgaaacgag tcgcgcgga cctgtctca gcccccaaa 
      accaacggc ctcgaaacg gacaaaacc agccgaagg 
      agagcctca acgctcagt cttcgcaaa gttccggac 
      ttttatatc cccccgatt gacccacga atccccctt 
      gaagagcaa aaggagaaa aacgtgtct cgcagtcaa 
      atcatcaag acgaaagac aagccgaag gacgagttt 
      tcaataagc aaagcgttg ccattccag aacttacaa 
      gtggtgaac tcactgtca tcacttgat tccagtgat 
      agtagcaca gtgaagcac cacaaaatt aacgtgcag 
      ttgccccaa tcggagaaa tacgtttat ggggccacc 
      cctaacggg gtgagcaac ggggtgcgc aggtcgccc 
      cctgttaac gtacgaggg gctgaaaag atgtacagg 
      gcgtactcg gccacggaa gtccgaggg aatggacat 
      tactcaagg aaataa
    mRNA sequence
    • >TC003654 RA
      tcagtatcg taaagcctc agcagcgtg cgcgtgtct 
      ataaccgga atttacgca cagaaatag cgttttgtt 
      tgtggggtg gttcacaca agtcgtgat tataatgtg 
      accgttgat tgaggtggt aaactatgg gaagtttga 
      tgaaaaaat ccctgggtg gaagcatac atcgaatcc 
      gcgagtttg aacttgaaa aagtaaatt tagccgaag 
      aattcgaca ttttgcaaa tcgtgggcg aaggatggt 
      tcggcaaga tcctcctgg tggagcaca aggccaccg 
      acaccgaga tggtgctca aggccctcc ccaagccct 
      acacctcca tcaaggact tctacaggg agttccact 
      acggcctgc acctggggg cgcacaaga acatcatca 
      cgacctacg acgtggcct tcgaaacgg ccggattct 
      acgtcttct cgcaggaat acgcccctc tgggcgatt 
      tgacttcca acgtctccg acaccggca tcggggagc 
      tgcacacga agcgcgtgg cgaaacaac tctccgccg 
      ctttggagc acctccaca cgcgtgacc tggtgcacc 
      gcgacgtga agttggaca atatcctag tgtttaagt 
      cggactttt cgcgtatca aactgtgtg atttcggag 
      agacgcgac gtgctggtt cggtggtga tgcgacgga 
      acgagtggc tgccctatg cgcccccgg aggtgctcc 
      aagtcgcca cagacggga gctacatga ccaacacta 
      gtcacgacg tttggcagt ttggaattg tgatatttg 
      tgtgtttga ccgggtgtc ttccatggc agaaagccg 
      cccctgacg acccccggt actccaggt atatttcct 
      ggcaaagca gcactattc cactgaaaa gacagccaa 
      aattgttta aactggtgt cgtccaaag cccaaaaac 
      tcttcaaaa aatatttag aaccaaaac ccgagaaaa 
      gaccagcgg ggcttgccg aagtccatc gatatttgg 
      aagaccgct ggatgtcca aaggcggga tggagaaaa 
      cgagcgagt tgccggatg aagaggagg ggctttgcc 
      cctcaatgt acagcttcc acagcagtc cggaggaaa 
      aaaataaac tactcttca ccctaaccc agtacggac 
      ttgagacaa ccgttgacc gaacggcca aaaaggacc 
      gaatccgcc agtggatcc agtcgagtg tcattgagg 
      aggaaaacg aagaagaaa tcgaagcac tgtccgatg 
      aagaaatcg gccctgagg gggagcgaa acgagtcgc 
      gcggacctg tctcagccc ccaaaacca acggcctcg 
      aaacggaca aaaccagcc gaaggagag cctcaacgc 
      tcagtcttc gcaaagttc cggactttt atatccccc 
      cgattgacc cacgaatcc cccttgaag agcaaaagg 
      agaaaaacg tgtctcgca gtcaaatca tcaagacga 
      aagacaagc cgaaggacg agttttcaa taagcaaag 
      cgttgccat tccagaact tacaagtgg tgaactcac 
      tgtcatcac ttgattcca gtgatagta gcacagtga 
      agcaccaca aaattaacg tgcagttgc cccaatcgg 
      agaaatacg tttatgggg ccaccccta acggggtga 
      gcaacgggg tgcgcaggt cgccccctg ttaacgtac 
      gaggggctg aaaagatgt acagggcgt actcggcca 
      cggaagtcc gagggaatg gacattact caaggaaat 
      aaatgctca aaacgtgac tgattgtta tttatattt 
      gtacatatt aacgtgtta ttaccacat ttgtatcat 
      ggagtgatt aataactag tcctaggcc aatttagag 
      taaaaaat
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