Status
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Gene information
General information
TC004911 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: 4531628..4549150
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
    TC004911
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03871

    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)

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 5
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004911 RA
      MTHSGINKN VKRRNCPAG ASGLCKIWP EEGLTRVFS 
      VSIGRLSAL GGAVSRALG CIVCSAVFV CTPSAVYTL 
      CGVVIVVKL WCEMEPPGG RDSRFNLGY SMNLLSGET 
      PPEIYGNPG LGRPSTSLQ QLSPRHTMV SSACGGRSL 
      KGDLCYDDR GMPQQGMGL EACGVNDIS EDTYNALQP 
      KKSPPSNGK KTKGRVKIK MEYIENKLR RYTTFSKRK 
      TGIMKKAYE LSTLTGTQV MLLVASETG HVYTFATRK 
      LQPMITSEA GKALIQTCL NSPDPPAGS ASGDQRMSA 
      TGFEETELT YNISDEDSK VRQMVYGSP HTHTHAHSL 
      SGQGHYSHL EQSHLGLGG SPQHGGYSQ ACPSPLPPP 
      HQGYGHPQH PHSHSHMTH SHPQR
    CDS sequence
    • >TC004911 RA
      atgacgcat tcgggaatt aataaaaat gtgaagcgt 
      agaaattgc cctgctgga gcttccgga ctttgtaaa 
      atttggccg gaggaaggc ttgacgagg gtctttagt 
      gtgagcatt ggccgcttg agcgcgctg ggcggcgca 
      gtcagtcga gctctgggt tgtattgtg tgctcagct 
      gtgtttgtg tgtactcct agtgctgta tacactttg 
      tgcggtgtt gttattgtt gtcaaactg tggtgcgaa 
      atggaacca cctggcggg agggattcc cgattcaac 
      ctgggctac agcatgaac ctgctgtcg ggggagacc 
      ccgcccgag atctacggc aaccctggc ctggggcgg 
      ccctccacc agcctgcag cagctgtcg ccgcgccac 
      accatggtg tcgagtgcg tgtggaggg cgctccctg 
      aagggcgac ctctgctac gacgaccgc ggcatgccc 
      cagcagggc atggggctg gaggcgtgc ggcgtcaac 
      gacatctcc gaagacacc tacaatgcc ctccagccc 
      aagaagtcg ccgccgagt aacggcaaa aagaccaaa 
      ggcagggtc aagatcaag atggaatac atcgaaaac 
      aagttgcgg cggtacacc acgttctca aagaggaag 
      actggcatc atgaagaag gcctacgag ctgtcgacc 
      ctcaccggg acgcaggtg atgctcctg gtggcgtcg 
      gagacgggg cacgtgtac accttcgca acccgcaaa 
      ctccaaccc atgataacc agcgaggct ggcaaagcc 
      ctgatccag acctgcttg aactccccg gatcctccg 
      gcgggttcg gcgtccggt gaccagcga atgtcggcc 
      accggcttc gaggaaacg gaactcacc tacaacatc 
      agcgacgag gactccaaa gtaagacaa atggtgtac 
      ggttcgccg catacacac acgcacgcg cattctttg 
      agcggccag gggcactat tcgcaccta gagcaaagt 
      cacctgggc ctaggcggc tccccgcag catgggggc 
      tattcgcag gcctgtcct agtccgctg ccgccgccc 
      catcagggc tacggacac ccgcaacac ccgcattcg 
      cactcgcac atgacgcac tcccatccc cagcggtag
    mRNA sequence
    • >TC004911 RA
      atccttaca atccattaa ttatccaat ttgcatatt 
      aacatatat cgcacaaga tgaagtaaa gcaggcgag 
      ccatgaaag gccaagcgg cttgttccc cgtgttctg 
      accaaatga ggcatcgcc aagcgcgct cttcgcttg 
      tccggacat cattattga cagttacct gccgaagag 
      aattttact agtttattt cttatgtca atcgatcct 
      cgcctgtgg tattctctt ccactcacc gctaactgc 
      caccgatac gatttcgag gaaaatcgg acgcaagaa 
      atgatttgt ccgataaca tacgcgaac agaaacttt 
      aacgccgaa caagacgac atttaaata cagactaca 
      cgtaaattc gacacatcc agattgcca gcgatgcga 
      tcttacaac cacaggaat gccgaggac ttgcaccga 
      aattaaaaa gcaaacaac tcgcatttg catgggttt 
      aacgcacga cgtttttgc atgttttga cattattgc 
      ctcttcgga ctcgaaact gtagcatca agcggatgc 
      accatgacg cattcggga attaataaa aatgtgaag 
      cgtagaaat tgccctgct ggagcttcc ggactttgt 
      aaaatttgg ccggaggaa ggcttgacg agggtcttt 
      agtgtgagc attggccgc ttgagcgcg ctgggcggc 
      gcagtcagt cgagctctg ggttgtatt gtgtgctca 
      gctgtgttt gtgtgtact cctagtgct gtatacact 
      ttgtgcggt gttgttatt gttgtcaaa ctgtggtgc 
      gaaatggaa ccacctggc gggagggat tcccgattc 
      aacctgggc tacagcatg aacctgctg tcgggggag 
      accccgccc gagatctac ggcaaccct ggcctgggg 
      cggccctcc accagcctg cagcagctg tcgccgcgc 
      cacaccatg gtgtcgagt gcgtgtgga gggcgctcc 
      ctgaagggc gacctctgc tacgacgac cgcggcatg 
      ccccagcag ggcatgggg ctggaggcg tgcggcgtc 
      aacgacatc tccgaagac acctacaat gccctccag 
      cccaagaag tcgccgccg agtaacggc aaaaagacc 
      aaaggcagg gtcaagatc aagatggaa tacatcgaa 
      aacaagttg cggcggtac accacgttc tcaaagagg 
      aagactggc atcatgaag aaggcctac gagctgtcg 
      accctcacc gggacgcag gtgatgctc ctggtggcg 
      tcggagacg gggcacgtg tacaccttc gcaacccgc 
      aaactccaa cccatgata accagcgag gctggcaaa 
      gccctgatc cagacctgc ttgaactcc ccggatcct 
      ccggcgggt tcggcgtcc ggtgaccag cgaatgtcg 
      gccaccggc ttcgaggaa acggaactc acctacaac 
      atcagcgac gaggactcc aaagtaaga caaatggtg 
      tacggttcg ccgcataca cacacgcac gcgcattct 
      ttgagcggc caggggcac tattcgcac ctagagcaa 
      agtcacctg ggcctaggc ggctccccg cagcatggg 
      ggctattcg caggcctgt cctagtccg ctgccgccg 
      ccccatcag ggctacgga cacccgcaa cacccgcat 
      tcgcactcg cacatgacg cactcccat ccccagcgg 
      taggtggat gggggaggg ccccaaagg ggccgattt 
      tagtcatga tttaggtta ttttagcgc gtttgggcc 
      cgaaacggg gggatacca aagaaacat tgggactct 
      ttctgtttt aaaaagaca tttttggat ctcggggca 
      ttgtgataa agttgatgc ggaagctgg agtcgttcg 
      agacacgct gttaaaaat aaatcgagg aatcgccgt 
      gtttttcga gcgcttatg cacgtttgt gaaccaata 
      aatcaacta tttctct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY