Status
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Gene information
General information
TC004431 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_007417.3: 5000033..5002198
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
      TC004431
      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_03755

      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: 40.0% (includes death as pupa, adult)

      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
      Days post injection


      adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
      Days post injection


      Analysis of embryonic musculature and early development
      number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: > 50
      embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
      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
      • >TC004431 RA
        MKTFQVFLF LLFCTSFTN ARGVNGGMS CAVCTVLTG 
        VTMQIAELH EEDLFNATK RLCNVLPNK IRHPCFRIV 
        DKVEPYLTN LSEKITPDL FCLVYGTCR VDKGQPFCH 
        LFPLTMEQE EMENVLKKE REKMLPKID FCKLPYIKD 
        ICNILNNSY TSLAPVEDF DNDGFSAME TGRGSDWRG 
        RDCVDNDPQ VYPGRRPLN SDYFSDSNC NGIWGTKND 
        TFLSLEQEL CKKSQPRGL IFIGDSIGA HFHMPEVWI 
        NPLLFSWPG LNGSSVILD EIDWPQFGF ATGFKNITR 
        NILIQGLTD SLYLRLRNR NRCNHRDYQ NLSQNGASS 
        YEGLNHVNS IARNRTTDN PALVIYAMQ GNDVCNNFN 
        DTINHMTSP ETFRRNVMK SLFLLDEKL PPQSHVVLV 
        ELVEADFIF PAMAERLHP IGRLHKNVF YKNLYEWFN 
        CMQIGPCTG WLNANQTLR DITSKRARK LSTILKYIA 
        TNETFKNFQ VHYIQNPIN YLVRNDKIN ITEFLEPVD 
        SLHPNQKAQ VLLTETVWN FLEKLPVLG PVNPHNDEI 
        IRIFGEQGG H
      CDS sequence
      • >TC004431 RA
        atgaaaacg tttcaagta tttttattt ttgctgttt 
        tgtacgtct tttacaaac gccaggggc gtaaacggc 
        ggcatgagt tgtgcagtt tgcacagtc ctaactggg 
        gttacaatg caaattgct gaactgcac gaggaagac 
        ttgttcaat gccacgaaa cgactctgc aatgtttta 
        ccaaataaa atacgacac ccttgtttc cgaattgtg 
        gacaaagtg gagccttat ttaacaaat ttgtccgag 
        aaaattact ccagatttg ttctgtctg gtttatggg 
        acgtgtaga gtggacaag gggcagccg ttttgccac 
        ttgtttccc ctaactatg gaacaggaa gaaatggaa 
        aacgtttta aaaaaagaa agggaaaaa atgcttcca 
        aaaattgat ttttgcaaa cttccatac atcaaagac 
        atttgcaac attttaaac aactcttac acgtcctta 
        gcccccgtt gaggacttt gataatgac ggtttcagc 
        gcgatggag actgggaga ggttcggac tggagaggg 
        agggattgc gtggacaac gacccacaa gtgtaccca 
        ggacggcgg cctttaaac tcggattat ttctccgac 
        agcaattgt aacggcatt tggggcacc aaaaacgac 
        accttcctg tctttggag caggaactg tgcaaaaaa 
        tcgcaacct agaggcttg atcttcatc ggtgactcc 
        ataggagcg cacttccat atgcccgaa gtttggata 
        aacccactg ttattcagt tggccgggt ttaaacggc 
        agcagtgtc attctggac gagatcgac tggccccag 
        tttgggttc gccaccggt ttcaaaaac ataacgagg 
        aatattttg attcaagga ttgactgac tctctttat 
        ttgcgactg cggaatcgc aacagatgc aatcaccgg 
        gattaccaa aatttgtcc caaaacggt gcttccagt 
        tacgaagga cttaatcat gtcaactca attgcaaga 
        aatcggacc actgataat ccagctttg gttatctac 
        gccatgcaa gggaacgat gtttgcaat aattttaat 
        gacacgata aatcatatg acgtctccg gaaacgttt 
        agacgaaat gttatgaaa agtttgttt ttactcgac 
        gagaaatta ccgcctcaa agtcacgta gttcttgtt 
        gaattggtt gaagcggat tttattttc ccggcaatg 
        gctgagaga ttgcaccca attggacga ttacacaaa 
        aacgtattt tataaaaac ttgtacgag tggtttaat 
        tgcatgcaa attggaccg tgcactgga tggttaaac 
        gcaaaccaa acacttcga gacatcact agtaaaaga 
        gccagaaaa ttatcaact attttgaaa tacatagcg 
        acaaacgaa accttcaaa aatttccaa gtccattat 
        attcaaaac ccaatcaat tatttagta cgcaatgac 
        aaaatcaac atcacggaa tttctcgaa cctgttgat 
        agcctacac ccgaatcaa aaagcccaa gtcttgttg 
        actgaaaca gtatggaac tttctggag aagcttcca 
        gttttggga cctgtcaac ccacataat gacgaaata 
        ataaggatt tttggggaa caagggggg cattaa
      mRNA sequence
      • >TC004431 RA
        cgtctacac aactcacac aatgaaaac gtttcaagt 
        atttttatt tttgctgtt ttgtacgtc ttttacaaa 
        cgccagggg cgtaaacgg cggcatgag ttgtgcagt 
        ttgcacagt cctaactgg ggttacaat gcaaattgc 
        tgaactgca cgaggaaga cttgttcaa tgccacgaa 
        acgactctg caatgtttt accaaataa aatacgaca 
        cccttgttt ccgaattgt ggacaaagt ggagcctta 
        tttaacaaa tttgtccga gaaaattac tccagattt 
        gttctgtct ggtttatgg gacgtgtag agtggacaa 
        ggggcagcc gttttgcca cttgtttcc cctaactat 
        ggaacagga agaaatgga aaacgtttt aaaaaaaga 
        aagggaaaa aatgcttcc aaaaattga tttttgcaa 
        acttccata catcaaaga catttgcaa cattttaaa 
        caactctta cacgtcctt agcccccgt tgaggactt 
        tgataatga cggtttcag cgcgatgga gactgggag 
        aggttcgga ctggagagg gagggattg cgtggacaa 
        cgacccaca agtgtaccc aggacggcg gcctttaaa 
        ctcggatta tttctccga cagcaattg taacggcat 
        ttggggcac caaaaacga caccttcct gtctttgga 
        gcaggaact gtgcaaaaa atcgcaacc tagaggctt 
        gatcttcat cggtgactc cataggagc gcacttcca 
        tatgcccga agtttggat aaacccact gttattcag 
        ttggccggg tttaaacgg cagcagtgt cattctgga 
        cgagatcga ctggcccca gtttgggtt cgccaccgg 
        tttcaaaaa cataacgag gaatatttt gattcaagg 
        attgactga ctctcttta tttgcgact gcggaatcg 
        caacagatg caatcaccg ggattacca aaatttgtc 
        ccaaaacgg tgcttccag ttacgaagg acttaatca 
        tgtcaactc aattgcaag aaatcggac cactgataa 
        tccagcttt ggttatcta cgccatgca agggaacga 
        tgtttgcaa taattttaa tgacacgat aaatcatat 
        gacgtctcc ggaaacgtt tagacgaaa tgttatgaa 
        aagtttgtt tttactcga cgagaaatt accgcctca 
        aagtcacgt agttcttgt tgaattggt tgaagcgga 
        ttttatttt cccggcaat ggctgagag attgcaccc 
        aattggacg attacacaa aaacgtatt ttataaaaa 
        cttgtacga gtggtttaa ttgcatgca aattggacc 
        gtgcactgg atggttaaa cgcaaacca aacacttcg 
        agacatcac tagtaaaag agccagaaa attatcaac 
        tattttgaa atacatagc gacaaacga aaccttcaa 
        aaatttcca agtccatta tattcaaaa cccaatcaa 
        ttatttagt acgcaatga caaaatcaa catcacgga 
        atttctcga acctgttga tagcctaca cccgaatca 
        aaaagccca agtcttgtt gactgaaac agtatggaa 
        ctttctgga gaagcttcc agttttggg acctgtcaa 
        cccacataa tgacgaaat aataaggat ttttgggga 
        acaaggggg gcattaaat tatttttaa taaaaaagg 
        tttttatta
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY