Status
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Gene information
General information
TC009593 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_007422.5: 3036637..3039833
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
    TC009593
    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
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09205

    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: 4 (3 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
    • >TC009593 RA
      MIFTAVFVI LLSIFLLTN RRYRWFYII YKTLGRDVR 
      AGIRFTILN FQLWRYEKT NQTVAKIFT KLVAKHPQK 
      VAFYFESEI WTFEDVDKY SNKIAHYFK NEGFKRGDA 
      VALVLESRP EYVTLWLGL AKIGVVTAL INSNLVADP 
      LAHSIQVAD AKAVVYGSD FAKGINDIS GKIPKVKLY 
      QFGKSDQLL PNSVDLIKE LEKEQDGPL TSDIKSGKP 
      RDKLLFIFT SGTTGLPKA AVITNLRFF FMALGIRYM 
      AVITEDDII YDPLPLYHS AGAIVGVGQ CILKGTTVV 
      IRKKFSASY FWVDCIKYR CTVAQYIGE ICRYLLAAH 
      ASDDRSIPH QVTKMLGNG LRPQIWNKF VTRFGVKEV 
      YEFYGATEG NSNLINIDS KVGAVGFVP RYASIFYPV 
      TLIKCDEET GAPIRNSDG FCQRCDPGE PGVCIGIVN 
      PKKTVNDFA GYADKKATE KKLIENVFK KGDRYFNSG 
      DILIQDEFG YYFFKDRTG DTFRWKGEN VATSEIEAV 
      ISNIVDLSD AIVYGVEIP GTEGRAGMV AIVDRNNTL 
      NMKQFCLGL KNNLPSYAV PIFVRVMTT VPMTGTYKL 
      KKTELQKEG FNLEKIQDK LFLYDAKNV DYIELTKEK 
      YHDIMTGKV RL
    CDS sequence
    • >TC009593 RA
      atgattttt acagcagtg tttgtgatt ttgttgtca 
      atttttctt ttaacaaat cggagatac cggtggttt 
      tatattatt tacaaaact ttaggacgc gatgtccgg 
      gccggcata aggttcacg atcttaaac ttccaacta 
      tggcgttac gaaaaaacc aaccaaacc gttgcgaaa 
      attttcaca aaactcgtc gcaaaacac ccccagaaa 
      gtcgctttc tacttcgaa agcgaaatt tggactttt 
      gaagacgtg gacaaatat agcaacaaa atcgcccat 
      tatttcaaa aatgaaggt tttaaaagg ggcgacgct 
      gtggccctt gtactcgaa tctcgcccc gaatatgta 
      acactttgg ctcggtttg gccaaaatt ggggtcgtt 
      acggccctg atcaacagt aatctcgtt gccgatccg 
      ttggcacac tcgatccaa gtggcggat gccaaagct 
      gtggtttat ggatctgat tttgcaaaa ggaatcaac 
      gatatttcg ggtaaaatc cccaaagtc aagctttac 
      caatttggt aaaagcgac caattgttg ccaaactct 
      gtcgatttg ataaaagaa ttagagaag gaacaagac 
      ggaccattg acttccgat atcaaaagt ggcaaacct 
      agagacaaa ctattattt atttttaca tcaggaacc 
      acaggcttg cccaaagct gcagtgata acaaattta 
      aggtttttc ttcatggct ttgggcatt cgctacatg 
      gctgttatc accgaagat gatattatt tacgaccct 
      ttgccactg tatcacagt gctggggcc atagtcgga 
      gtaggacag tgtatccta aaaggcaca acagtcgtg 
      atacgaaaa aaattctca gcgtcgtat ttctgggtc 
      gactgtatt aaatacaga tgcacggtt gcccagtat 
      atcggcgaa atctgccgc tacctcctc gccgcccac 
      gcctccgac gaccgctcc atcccccac caggtcaca 
      aagatgctc ggaaacggc ctccgcccc caaatttgg 
      aacaaattc gtgacccga tttggcgta aaagaagtt 
      tacgaattt tacggcgcc actgaaggc aactccaac 
      ttaatcaac attgacagt aaagtgggg gctgtgggt 
      ttcgtccct cgctacgcc tcaattttc taccccgtc 
      acactgata aaatgtgac gaggagacc ggggcccca 
      attcgtaac agcgacggt ttttgccaa cgttgcgat 
      ccgggcgag cccggagtt tgcatcggg attgtcaat 
      ccgaagaaa accgtcaac gatttcgcc ggttacgct 
      gataagaaa gccaccgag aaaaaacta atcgagaat 
      gtgttcaaa aaaggcgat cgttatttc aattctggc 
      gatattttg atccaggac gagttcggt tattacttt 
      tttaaggac aggacgggc gatacgttc aggtggaag 
      ggcgaaaat gtcgcaact tcggaaatt gaggctgtt 
      attagcaat attgtggat ctgagcgat gccatagtt 
      tatggtgtt gaaattccc ggaactgag ggacgggct 
      ggaatggtc gcgatcgtt gaccggaat aatactctc 
      aatatgaaa cagttttgt ttaggtttg aaaaataat 
      ttgccctcc tatgcggtg ccaattttc gttagagtt 
      atgaccacg gttcctatg acagggacc tacaagttg 
      aagaaaact gaactgcag aaggaaggg tttaacttg 
      gagaaaatc caagataag ttgttcttg tacgatgcc 
      aaaaatgtg gattatatt gaactgacc aaggagaaa 
      taccatgac attatgaca gggaaagta aggctgtaa
    mRNA sequence
    • >TC009593 RA
      ttattacat cactgtaag aagtaacga gtgtatagt 
      tcaaccttt catacactt gaagtacat acaatgtgt 
      ttacaattt tcttacgaa cctcgaaca tgattttta 
      cagcagtgt ttgtgattt tgttgtcaa tttttcttt 
      taacaaatc ggagatacc ggtggtttt atattattt 
      acaaaactt taggacgcg atgtccggg ccggcataa 
      ggttcacga tcttaaact tccaactat ggcgttacg 
      aaaaaacca accaaaccg ttgcgaaaa ttttcacaa 
      aactcgtcg caaaacacc cccagaaag tcgctttct 
      acttcgaaa gcgaaattt ggacttttg aagacgtgg 
      acaaatata gcaacaaaa tcgcccatt atttcaaaa 
      atgaaggtt ttaaaaggg gcgacgctg tggcccttg 
      tactcgaat ctcgccccg aatatgtaa cactttggc 
      tcggtttgg ccaaaattg gggtcgtta cggccctga 
      tcaacagta atctcgttg ccgatccgt tggcacact 
      cgatccaag tggcggatg ccaaagctg tggtttatg 
      gatctgatt ttgcaaaag gaatcaacg atatttcgg 
      gtaaaatcc ccaaagtca agctttacc aatttggta 
      aaagcgacc aattgttgc caaactctg tcgatttga 
      taaaagaat tagagaagg aacaagacg gaccattga 
      cttccgata tcaaaagtg gcaaaccta gagacaaac 
      tattattta tttttacat caggaacca caggcttgc 
      ccaaagctg cagtgataa caaatttaa ggtttttct 
      tcatggctt tgggcattc gctacatgg ctgttatca 
      ccgaagatg atattattt acgaccctt tgccactgt 
      atcacagtg ctggggcca tagtcggag taggacagt 
      gtatcctaa aaggcacaa cagtcgtga tacgaaaaa 
      aattctcag cgtcgtatt tctgggtcg actgtatta 
      aatacagat gcacggttg cccagtata tcggcgaaa 
      tctgccgct acctcctcg ccgcccacg cctccgacg 
      accgctcca tcccccacc aggtcacaa agatgctcg 
      gaaacggcc tccgccccc aaatttgga acaaattcg 
      tgacccgat ttggcgtaa aagaagttt acgaatttt 
      acggcgcca ctgaaggca actccaact taatcaaca 
      ttgacagta aagtggggg ctgtgggtt tcgtccctc 
      gctacgcct caattttct accccgtca cactgataa 
      aatgtgacg aggagaccg gggccccaa ttcgtaaca 
      gcgacggtt tttgccaac gttgcgatc cgggcgagc 
      ccggagttt gcatcggga ttgtcaatc cgaagaaaa 
      ccgtcaacg atttcgccg gttacgctg ataagaaag 
      ccaccgaga aaaaactaa tcgagaatg tgttcaaaa 
      aaggcgatc gttatttca attctggcg atattttga 
      tccaggacg agttcggtt attactttt ttaaggaca 
      ggacgggcg atacgttca ggtggaagg gcgaaaatg 
      tcgcaactt cggaaattg aggctgtta ttagcaata 
      ttgtggatc tgagcgatg ccatagttt atggtgttg 
      aaattcccg gaactgagg gacgggctg gaatggtcg 
      cgatcgttg accggaata atactctca atatgaaac 
      agttttgtt taggtttga aaaataatt tgccctcct 
      atgcggtgc caattttcg ttagagtta tgaccacgg 
      ttcctatga cagggacct acaagttga agaaaactg 
      aactgcaga aggaagggt ttaacttgg agaaaatcc 
      aagataagt tgttcttgt acgatgcca aaaatgtgg 
      attatattg aactgacca aggagaaat accatgaca 
      ttatgacag ggaaagtaa ggctgtaat tagtgcaaa 
      ttgtgtagt atttaaata cagttttgg ttgttttat 
      tctctttgt tttatttat aatcgagcg ttaataaaa 
      tctttgttg tgct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY