Status
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Gene information
General information
TC009468 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: 643729..649713
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
    TC009468
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_10728

    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: 10.0% (includes death as pupa, adult)

    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: < 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
    • >TC009468 RA
      MLDFYSQFN PSPLSIKKF IDFGLNASE QKSFIFLRK 
      ELPVRLANI MKEIALLPE NLLRMPSVV AVNDWYIRS 
      FQEIIEFEK KEINHDTLN YFCDSLVKI RNRHADVVE 
      TMAQGVLEL KESHDVDHQ TEHSIQYFL DRFYMSRIS 
      IRMLINQHT LLFGGQLEN APGPNQSKY IGCIDPQCD 
      IVSVIKDAY ENARFLCDQ YYLASPDLI INQSQHNEL 
      QQEGRINIV YVPSHLYHM LFELFKNAM RAVMEYHVS 
      NDKYPPITV TIAKGKEDI SLKMSDRGG GIARSTTEH 
      LFKYMYSTA PQPSKSDAH TVPLAGYGY GLPISRLYA 
      RYFHGDLVL MSCEGDGTD AVIYLKALS NEANELLPI 
      FNKTTSKFY RTMVQTGDW SNQAANVSQ RTISTHYKK 
      HQLPQESMT GAI
    CDS sequence
    • >TC009468 RA
      atgctggat ttctactcc caattcaac ccgtcaccc 
      ttatccata aagaaattt atagatttc ggcttgaat 
      gcctccgag caaaaatcg ttcattttc ctacggaag 
      gaactgccg gtgcgtttg gccaacatc atgaaagag 
      atcgccctt ctgcctgaa aatctcctg agaatgccg 
      tcagtggtc gccgtcaac gattggtac atccgcagt 
      ttccaggaa atcatcgag ttcgaaaag aaggaaatc 
      aaccacgat accctcaac tacttctgt gatagttta 
      gtgaaaatc cgtaatcgg catgccgac gttgtcgaa 
      acgatggct cagggagtc ctcgaattg aaggaatcg 
      cacgatgtt gaccatcaa accgagcac agcattcag 
      tatttcttg gaccggttc tatatgtcg aggatatcg 
      attcgaatg ttgatcaat cagcacaca cttttattt 
      gggggacaa ttggagaat gcaccagga cccaaccaa 
      agcaaatac attggctgt atcgatcca cagtgtgat 
      atcgtaagc gttattaaa gacgcctac gaaaacgca 
      cgctttctg tgtgatcaa tattactta gcttcgcct 
      gacttaatc atcaaccaa tcgcaacat aatgaattg 
      caacaagaa ggacgaatt aatatagtc tatgtcccc 
      tcacatctt taccacatg ctgttcgag ctgttcaag 
      aatgcaatg agagcggtt atggagtat cacgtgtcc 
      aatgacaag tatcctcca atcacggtc accatagcc 
      aaggggaag gaagacatc tcgctcaag atgtcggac 
      cgaggcggg ggcatcgcc cgttccacc acggagcac 
      ctgttcaaa tacatgtac tcgacagcc ccccagccc 
      agcaaatcg gacgctcac acagtccca ttggcgggt 
      tatgggtac ggtttgccc atttctaga ttatatgct 
      cggtatttc cacggagac ctagttttg atgtcgtgt 
      gaaggcgat gggaccgat gctgttatc tatctcaaa 
      gctttgtcg aatgaagcg aatgaattg cttccaatc 
      ttcaataaa accacatcg aagttttat cgaacgatg 
      gtacaaact ggtgattgg tccaatcag gctgctaat 
      gtgagtcag aggacaatc agcacgcac tataagaaa 
      caccaactg ccgcaggaa tcaatgaca ggggctata 
      tag
    mRNA sequence
    • >TC009468 RA
      ccaataaga tggcgctcg tgtcaaaaa ttgcaaatt 
      tcaagaaag ctctcaaac taaacttgt gaacggtat 
      ataaaatat cgcgccggc aaggtcatt tcagttttg 
      ttatgagat agtactgtg gttcgagtg ttgtgagac 
      aacttggaa taaaatcac acgagttcg aagcgacaa 
      tgagactga cagcgaagg catgtcaaa gcattgcaa 
      aaatgctgg atttctact cccaattca acccgtcac 
      ccttatcca taaagaaat ttatagatt tcggcttga 
      atgcctccg agcaaaaat cgttcattt tcctacgga 
      aggaactgc cggtgcgtt tggccaaca tcatgaaag 
      agatcgccc ttctgcctg aaaatctcc tgagaatgc 
      cgtcagtgg tcgccgtca acgattggt acatccgca 
      gtttccagg aaatcatcg agttcgaaa agaaggaaa 
      tcaaccacg ataccctca actacttct gtgatagtt 
      tagtgaaaa tccgtaatc ggcatgccg acgttgtcg 
      aaacgatgg ctcagggag tcctcgaat tgaaggaat 
      cgcacgatg ttgaccatc aaaccgagc acagcattc 
      agtatttct tggaccggt tctatatgt cgaggatat 
      cgattcgaa tgttgatca atcagcaca cacttttat 
      ttgggggac aattggaga atgcaccag gacccaacc 
      aaagcaaat acattggct gtatcgatc cacagtgtg 
      atatcgtaa gcgttatta aagacgcct acgaaaacg 
      cacgctttc tgtgtgatc aatattact tagcttcgc 
      ctgacttaa tcatcaacc aatcgcaac ataatgaat 
      tgcaacaag aaggacgaa ttaatatag tctatgtcc 
      cctcacatc tttaccaca tgctgttcg agctgttca 
      agaatgcaa tgagagcgg ttatggagt atcacgtgt 
      ccaatgaca agtatcctc caatcacgg tcaccatag 
      ccaagggga aggaagaca tctcgctca agatgtcgg 
      accgaggcg ggggcatcg cccgttcca ccacggagc 
      acctgttca aatacatgt actcgacag ccccccagc 
      ccagcaaat cggacgctc acacagtcc cattggcgg 
      gttatgggt acggtttgc ccatttcta gattatatg 
      ctcggtatt tccacggag acctagttt tgatgtcgt 
      gtgaaggcg atgggaccg atgctgtta tctatctca 
      aagctttgt cgaatgaag cgaatgaat tgcttccaa 
      tcttcaata aaaccacat cgaagtttt atcgaacga 
      tggtacaaa ctggtgatt ggtccaatc aggctgcta 
      atgtgagtc agaggacaa tcagcacgc actataaga 
      aacaccaac tgccgcagg aatcaatga caggggcta 
      tatagctag aggagtaat tttttagtt agttttagg 
      ttgagttta aggttaaaa tgcatgtgt gataaattt 
      gttgcaatt tagactgtg agaattagt cgtttgttg 
      ctaagcacg tattgcatg aatgttgtg atgtattga 
      gttcccatg taatggaga aaagtaact tgagctgtt 
      atctaatgt taggttata ttttattac agaccgctg 
      agtctcaaa atatcatgt aaataaact agaaatttt 
      attaagttt gtaaaaatg tatataact atatactga 
      aacaaatta tttttaaat tatgtatta tatttatga 
      ctgaagttg atttcgcta ttttgattt tgaaaatga 
      aggtggtta aataaataa gt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY