Status
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Gene information
General information
TC004663 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: 1133997..1137323
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
    TC004663
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10685

    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: 0.0% (includes death as pupa, adult)

    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: % (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
    • >TC004663 RA
      MSEQQSCYC APCQEFLSI CTIKRPVYP LDPVAPDHS 
      EFFLIDSNV RIRVVHVAP ENGLKLPNL DLHQGAKRS 
      SLSEEYWFT KWNKPLKIG ICRCSFRRS FRLSVAENR 
      DSFEAAPKR IVDVESFVE RIIQDTIFE AFQEYYVLR 
      NQNGVINLA YQKSEDDGV VLRKPVTRQ PKQCLHKKY 
      AQKKPVIIL FHGIGNSAD VWWPVIHTL ANKGYEVIA 
      PDMLGHGFS SAPNKPNSY TFHNLLIHA ITIFDHYTA 
      SDDKRKCIL IGHSYGCSI VTALYRHRA PQISQLILI 
      SGGGPTPLA APVKNSEIS PFGCIHTLF KPLLFCGLK 
      RSFLFSSRG KHFEVCEGE SAIPPRILE YISRGQNWP 
      EGDAAFHRR ILVPTLLVH GLQDKNVTL VQQCEMERT 
      IPRAFLELI PNAGHMAMI ETPEHLSHM ILCFIDTWS
    CDS sequence
    • >TC004663 RA
      atgagcgag caacagtcg tgttattgt gccccatgc 
      caggagttc ttgtccatt tgtaccatc aaacggccc 
      gtgtacccc ctagacccc gtggccccc gaccacagc 
      gagttcttt ttgatcgat tcaaacgta cgcatccgt 
      gtcgtgcac gtagcaccg gaaaacggg ctcaaactg 
      ccaaatctg gacctccac caaggcgca aagcgcagc 
      tcgttgtcc gaagagtac tggtttacg aaatggaac 
      aagcccctg aaaatcggc atttgtcgg tgctccttc 
      cggcggtcg ttccgactc tcagtggcg gagaaccgg 
      gacagtttt gaagcagcc cccaagcgc atcgtcgac 
      gtcgagagc ttcgtcgag cggatcatc caagacacg 
      attttcgag gcctttcag gagtactac gttttgagg 
      aaccaaaac ggcgttatc aacctagcg tatcagaaa 
      agtgaggac gacggcgtg gttttgcga aagccggtc 
      acgcgccaa cccaaacaa tgcctccat aaaaaatac 
      gcgcaaaaa aagcctgtt attattttg tttcatggt 
      attggcaat tccgctgac gtttggtgg ccggttatc 
      cataccttg gccaataaa ggatatgag gtcattgcc 
      cccgatatg ttggggcat ggcttcagc tcagccccc 
      aataaaccg aattcctac acttttcat aatttgtta 
      atacatgca atcacgatt ttcgaccac tacacggct 
      tccgacgac aagcggaag tgcattctc atcggacac 
      tcctacggt tgtagcatc gtcacagcc ctctaccgc 
      cacagggcg ccccaaatc tcgcagtta atcttaatc 
      agtggcggc gggcctaca cctctggca gctccggtc 
      aaaaacagc gaaatttcg ccatttggg tgcatccac 
      accctattc aagccgcta cttttctgt ggcttgaaa 
      cggagtttc ctgttttct tcccgtgga aagcatttc 
      gaggtttgt gagggcgag tcggccata cctcctcga 
      atcctggaa tacatctca agggggcaa aactggccg 
      gagggcgac gctgccttc cataggcgc atccttgtg 
      cccacgtta ctcgtgcat gggctgcag gataaaaac 
      gttacgctt gtacaacaa tgtgagatg gagaggacc 
      ataccgagg gcctttctg gaactgatc ccaaatgcg 
      gggcatatg gccatgatc gaaacgccg gagcatctc 
      agccatatg atcttgtgt tttattgac acctggagc 
      taa
    mRNA sequence
    • >TC004663 RA
      caaacgtga cctttgttt ttgttggcg aatttttaa 
      attaattca ataaatttg caatacaat tatgcaaac 
      aggtggttg agcagttgt gtcccagaa atgatttaa 
      atccgcttg aaaactgcg aaaaaactc gcacagtta 
      cgacaacct ggagacgaa aaatgccaa gcaactgtt 
      tttattcat ttgagccac tacttaagt aagacaagc 
      tcacagtcg gaattattc aaagttcaa gctctaatt 
      gacctaact gtgtgggct gggttaata aaattaaaa 
      atgggcata acgtgacga aatgagcga gcaacagtc 
      gtgttattg tgccccatg ccaggagtt cttgtccat 
      ttgtaccat caaacggcc cgtgtaccc cctagaccc 
      cgtggcccc cgaccacag cgagttctt tttgatcga 
      ttcaaacgt acgcatccg tgtcgtgca cgtagcacc 
      ggaaaacgg gctcaaact gccaaatct ggacctcca 
      ccaaggcgc aaagcgcag ctcgttgtc cgaagagta 
      ctggtttac gaaatggaa caagcccct gaaaatcgg 
      catttgtcg gtgctcctt ccggcggtc gttccgact 
      ctcagtggc ggagaaccg ggacagttt tgaagcagc 
      ccccaagcg catcgtcga cgtcgagag cttcgtcga 
      gcggatcat ccaagacac gattttcga ggcctttca 
      ggagtacta cgttttgag gaaccaaaa cggcgttat 
      caacctagc gtatcagaa aagtgagga cgacggcgt 
      ggttttgcg aaagccggt cacgcgcca acccaaaca 
      atgcctcca taaaaaata cgcgcaaaa aaagcctgt 
      tattatttt gtttcatgg tattggcaa ttccgctga 
      cgtttggtg gccggttat ccatacctt ggccaataa 
      aggatatga ggtcattgc ccccgatat gttggggca 
      tggcttcag ctcagcccc caataaacc gaattccta 
      cacttttca taatttgtt aatacatgc aatcacgat 
      tttcgacca ctacacggc ttccgacga caagcggaa 
      gtgcattct catcggaca ctcctacgg ttgtagcat 
      cgtcacagc cctctaccg ccacagggc gccccaaat 
      ctcgcagtt aatcttaat cagtggcgg cgggcctac 
      acctctggc agctccggt caaaaacag cgaaatttc 
      gccatttgg gtgcatcca caccctatt caagccgct 
      acttttctg tggcttgaa acggagttt cctgttttc 
      ttcccgtgg aaagcattt cgaggtttg tgagggcga 
      gtcggccat acctcctcg aatcctgga atacatctc 
      aagggggca aaactggcc ggagggcga cgctgcctt 
      ccataggcg catccttgt gcccacgtt actcgtgca 
      tgggctgca ggataaaaa cgttacgct tgtacaaca 
      atgtgagat ggagaggac cataccgag ggcctttct 
      ggaactgat cccaaatgc ggggcatat ggccatgat 
      cgaaacgcc ggagcatct cagccatat gatcttgtg 
      ttttattga cacctggag ctaattatc tgatattta 
      tttttattt atttttata ctttttacc agagccgga 
      tcgagacac agtttcacc tgttttaca gtaggtgaa 
      agtcttagt gaggcggaa aagtacatt taaaatttt 
      tattacaat tacaaaatt ttacgattt ttatttaac 
      ttgttttgt tgtctgtgt tatatcttt cgggttaaa 
      tgtgagaaa tttctgtta tccaaatga gctgaaatt 
      ttgcataca cacgtaatc tccgtacta tttagttaa 
      ttagccctt aataataaa aattattaa taattgtat 
      tcttgcgga tgataatat attctttgt catgtagat 
      gctattagt aaaataatt ctaaaatat ttattatgc 
      aatgtttta gtggaagta aattgtgaa atgtttgaa 
      aaagcttgt actaaaatt tacttacct ataacggtc 
      tttttaccg ctttacacc ttatcaaaa ttctaaagt 
      tgtagataa atttcagag aaaacataa ttaaccatt 
      tttaattct tttttactt ttaacagct aatcatttt 
      caattcatt atttcctta atggtttac aaaactgtt 
      agcactttt tctgtttag tgttatgta acctttgtt 
      gaataatta ttactcctg ttaaaaaac caaatttat 
      taacaaaaa tcgtaaata cacatttgg cgccctttg 
      tgtgggccc ctcaccctc gatccggcc ctggtttta 
      ttgtttgac gaacttcag cctgaatta actatgtga 
      tataagaag tgcaagtat taatccgtc cgataacgt 
      aacgaagta ttatttttt actcacttt aataaagtt 
      tttcaaccg aa
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