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Gene information
General information
TC004640 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: 4264674..4272731
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 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
    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.

    {{ goGene }}
    The Tribolium gene the GO term is assigned to.
    GO ID *
    {{ blurIdResult }}
    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.
    {{ blurEvidenceResult }}
    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.
    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.
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
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    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02947

    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.
    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.
    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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.
    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
    Left: Right:
    Protein sequence
    • >TC004640 RA
    CDS sequence
    • >TC004640 RA
      atgacatct gggacttct tcgccaaca ccaacggat 
      tcgccgtcc ttatcacaa cgaccttta ctcactgca 
      ataactcca ataccgaag aaaactgtt gaatttgaa 
      accatgcca gcgaaacgg tccgatgct gcagccaag 
      gatccggaa agtttgacg ttgcggcaa aaacgcggc 
      cgtctcaca caaccccgg atgagtctt cttggtaga 
      ccgctcaat tatagagct tcacgccga gatgctcgc 
      tatcgtcga attcaaagt cgggtttat aacttccta 
      gagagacct cggggggtc gctatcttc taccacatg 
      atagtcttc ttgatggtt tttacatgt ttaactttg 
      agtgtgttt tcaacgatt gagacttac gaagacatg 
      actgttcaa gtcctaact tacatggaa tcgttcgtc 
      gttatttgg tttgctatt gaattcagc ctaaggctt 
      tggtcttcg ggatgtcgc tcccgctac caaggctac 
      atcggccgc cttaaattt cttagacgt ccgttctgt 
      attattgat gttataaca attgtggct tccattgtt 
      gttctggtt atgaggtct cgcggtcaa gttttagcg 
      actagcgcc cttcgtggt ttacgattt ttccaaatt 
      ttgcggatg gtccgaatg gacagacgt ggagggact 
      tggaaactg ttgggctca gtcgtgtac gcacatcga 
      caagaactt ataactacg ttatacata ggatttttg 
      ggcttgatt ttcgcttca tttttggtc ttcctggcg 
      gaaaaagac gtgaacaaa aatttctcc aattttgca 
      caagctttg tggtggggt gttattaca ttgtgcact 
      gttggctat ggggatatg gttccggaa acatggcaa 
      ggcaaaatc attgcttcg ttttgtgct ttacttggt 
      atatcgttt tttgcattg ccggctgga attttagga 
      tccggtttt gctttaaaa gttcagcaa caacaaagg 
      caaaagcat atgatcagg aggagacaa ccagccgca 
      atgctaatt cagtcgctt tggcgatgt tacgcagcc 
      gatgagcac tccctatct gtggctacg tggaaaata 
      catcaagtt cccttaccc agcccgccc tcacgagtt 
      tcgagcagt tttaagcac aatgcatct tttgtaagt 
      cgattaccg acaattcgt cgccacaaa agcacttca 
      cttcattcc ccgtcgatg cataaagga ccaccaaga 
      agtggtagg agtttcgtg gatttaaac gcatcagca 
      gaaaattta ggcggagtc agcaacaac ggatcgcgg 
      aatttgagc catagcgag gattcggtt gcagagacg 
      atgctttcg aaaaaaaat tccgacgat gaggacgac 
      gagccgaga tatatacag ttaacgaat cagcacaaa 
      ggggcaatc cgggccatc cgtaagctc aagtatttt 
      gtggcacga aagaagttt agagaggcc ttgaagcca 
      tatgacgtt aaagacgtt atagaacaa tattcgtct 
      gggcatgca gatcttttg aatagagtg aaaaactta 
      cagttcaga ttagatcaa atcctaggg aaacaaggc 
      tccaaggcg aaagatgtt tatgcttcc aaaatcagt 
      ttagcatcg cgcgtagtc aaagttgaa agacaagta 
      gatgacata gagtctaag attgaccag cttttagag 
      ctttacatg gaagaccgt aaacgcttc ctctctctt 
      ccttacatc cagccaagc gccgaaaaa aacaccact 
      tcctctagt acaaccgtc aatctatgt tcttcaaac 
      atgacaaat ccgtcgagt acaatcctt aaacctaaa 
      ccaatactt gtagagaaa caatcatcc gaaccaagt 
      tcgccaatc acaaaaagt tttaaagaa cattcaacg 
      gccgcagta acaaaacga ccaatgcat cgcggattt 
      tccgacctc ggcaatcgg attaaaaaa agagtgaca 
      ttaagttca atttcgtcg aattatgtg tgcccaccg 
      gatggcatg tcctacgac ggcgaagtc gtgattgtg 
      gttcccccc atcaacaac acgccatcg acagttggt 
      gcttcggca caggagccg gacttaggg agcccaaag 
      acagccaca gaaagctct ggggtgaaa aagttaacg 
      agaaatcga aattgtgaa gaagatgaa gacgacgca 
      gcggagaag ccgttacta tgccgttcg aaatcaaca 
      gaaatactc atcacgcca acgacttta gaaaccacc 
      agagaagaa ttttatgat aataaaact aatcaacaa 
      tcaaaaaac aaattttta aaagacgat gtatga
    mRNA sequence
    • >TC004640 RA
      ccgtccgtt tttcgggtt aatccgttt atatctcca 
      attctattg atttattaa ctccttgat gatgccgga 
      gatgccgaa aatttttca ctctttcga tattgccgc 
      tcccccaca acaccctca tgaatactt aaatgccgc 
      tttgagagg agagtaaca cgcttgagg caaaatgac 
      atctgggac ttcttcgcc aacaccaac ggattcgcc 
      gtccttatc acaacgacc tttactcac tgcaataac 
      tccaatacc gaagaaaac tgttgaatt tgaaaccat 
      gccagcgaa acggtccga tgctgcagc caaggatcc 
      ggaaagttt gacgttgcg gcaaaaacg cggccgtct 
      cacacaacc ccggatgag tcttcttgg tagaccgct 
      caattatag agcttcacg ccgagatgc tcgctatcg 
      tcgaattca aagtcgggt ttataactt cctagagag 
      acctcgggg ggtcgctat cttctacca catgatagt 
      cttcttgat ggtttttac atgtttaac tttgagtgt 
      gttttcaac gattgagac ttacgaaga catgactgt 
      tcaagtcct aacttacat ggaatcgtt cgtcgttat 
      ttggtttgc tattgaatt cagcctaag gctttggtc 
      ttcgggatg tcgctcccg ctaccaagg ctacatcgg 
      ccgccttaa atttcttag acgtccgtt ctgtattat 
      tgatgttat aacaattgt ggcttccat tgttgttct 
      ggttatgag gtctcgcgg tcaagtttt agcgactag 
      cgcccttcg tggtttacg atttttcca aattttgcg 
      gatggtccg aatggacag acgtggagg gacttggaa 
      actgttggg ctcagtcgt gtacgcaca tcgacaaga 
      acttataac tacgttata cataggatt tttgggctt 
      gattttcgc ttcattttt ggtcttcct ggcggaaaa 
      agacgtgaa caaaaattt ctccaattt tgcacaagc 
      tttgtggtg gggtgttat tacattgtg cactgttgg 
      ctatgggga tatggttcc ggaaacatg gcaaggcaa 
      aatcattgc ttcgttttg tgctttact tggtatatc 
      gttttttgc attgccggc tggaatttt aggatccgg 
      ttttgcttt aaaagttca gcaacaaca aaggcaaaa 
      gcatatgat caggaggag acaaccagc cgcaatgct 
      aattcagtc gctttggcg atgttacgc agccgatga 
      gcactccct atctgtggc tacgtggaa aatacatca 
      agttccctt acccagccc gccctcacg agtttcgag 
      cagttttaa gcacaatgc atcttttgt aagtcgatt 
      accgacaat tcgtcgcca caaaagcac ttcacttca 
      ttccccgtc gatgcataa aggaccacc aagaagtgg 
      taggagttt cgtggattt aaacgcatc agcagaaaa 
      tttaggcgg agtcagcaa caacggatc gcggaattt 
      gagccatag cgaggattc ggttgcaga gacgatgct 
      ttcgaaaaa aaattccga cgatgagga cgacgagcc 
      gagatatat acagttaac gaatcagca caaaggggc 
      aatccgggc catccgtaa gctcaagta ttttgtggc 
      acgaaagaa gtttagaga ggccttgaa gccatatga 
      cgttaaaga cgttataga acaatattc gtctgggca 
      tgcagatct tttgaatag agtgaaaaa cttacagtt 
      cagattaga tcaaatcct agggaaaca aggctccaa 
      ggcgaaaga tgtttatgc ttccaaaat cagtttagc 
      atcgcgcgt agtcaaagt tgaaagaca agtagatga 
      catagagtc taagattga ccagctttt agagcttta 
      catggaaga ccgtaaacg cttcctctc tcttcctta 
      catccagcc aagcgccga aaaaaacac cacttcctc 
      tagtacaac cgtcaatct atgttcttc aaacatgac 
      aaatccgtc gagtacaat ccttaaacc taaaccaat 
      acttgtaga gaaacaatc atccgaacc aagttcgcc 
      aatcacaaa aagttttaa agaacattc aacggccgc 
      agtaacaaa acgaccaat gcatcgcgg attttccga 
      cctcggcaa tcggattaa aaaaagagt gacattaag 
      ttcaatttc gtcgaatta tgtgtgccc accggatgg 
      catgtccta cgacggcga agtcgtgat tgtggttcc 
      ccccatcaa caacacgcc atcgacagt tggtgcttc 
      ggcacagga gccggactt agggagccc aaagacagc 
      cacagaaag ctctggggt gaaaaagtt aacgagaaa 
      tcgaaattg tgaagaaga tgaagacga cgcagcgga 
      gaagccgtt actatgccg ttcgaaatc aacagaaat 
      actcatcac gccaacgac tttagaaac caccagaga 
      agaatttta tgataataa aactaatca acaatcaaa 
      aaacaaatt tttaaaaga cgatgtatg acataattt 
      aaatttgtt attagttta tatattatg accgttaaa 
      tattcaaaa taatgtaaa tgattatag atttttgga 
      cctaaaact tgcgaatat ttttaacat gtactgaac 
      ttagggcac aataatgac gcttattaa tataaaaat 
      atatttgaa aagtttgta cttcttcac ttaggatta 
      aaatttgct gtagcatgt tttagctgt gatttgttt 
      cgacgtttt atactgaaa ctttacagg gacattggc 
      caatgcttg tagattaat tcagttacg tttcacaag 
      tgaatttta acggcaact tgtacttac aacgaccac 
      actataatc ctaacgttt ttataatat caagtagaa 
      aaaaacgcc taacaaaca atcaacgac tttaaaaat 
      gtgctgctg aaattcact tttaatcag tagactata 
      ctataaaat ttagctatt taaaaatgt acgtaaaat 
      aatgtgatt aatttatag atacgacag taatatttt 
      ttgacccga cccattgcc tactgttgt tacaataag 
      tatttgttt gcttaaaaa tgatgtgga acatctata 
      ctgtacggg atttttaat aaaac

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY