Status
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Gene information
General information
TC015653 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_007421.3: 4179504..4199966
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
    TC015653
    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_08539

    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: 3 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    larva completeeverted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva partiallyeverted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva dorsalbent - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva circumference decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Comment: the not everted part as well as the "bent" larvae
    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
    • >TC015653 RA
      MRRNALGRS PSQCLLCGD GFGMLGAQK VLCIDCRRL 
      VCQKCAIET YTKAARNYW LCMICAETR EIWKKSGAW 
      FFKSIPKYI LPAEKNQNY RHSLGKIGR NSKGNYRDE 
      DSSSDEERK IWTRIQRRN SSTESTHDG HESVQDVAT 
      MSTHKRQSS ASESQQSKE MESLKGLGS LNLSETKVW 
      DQAEGSELS RRESTVSRS LSEWNWSDS RSEDRVSPS 
      TSSVSSSIF KSNLEEHKP SDHSLGTIE LSLTYDPIT 
      STLHCTVYR AKNLIPMDI NGLSDPFCK LNILPNAKP 
      STRLRTKTV HKTRNPEFN ENLTFYDIS ESDLSKKAL 
      HVLVVDDDK FGHDYMGET RIGLAKLKQ QNTIYVAAS 
      LEEMRHEQK GPLPAPELN QWFDDLWSR GQILLSLCY 
      STKRRALLV MVCRCANLL PMDNNGFSD PFVKLQLRP 
      DPCHRKHKT SIKWKNLNP VYNEEFAFE TRPTELATQ 
      SLYITVYDK DYGKSNDYL GGLILGGTG SKGLRLKQW 
      LDMIRYPDH RHEAWHNLT EEILD
    CDS sequence
    • >TC015653 RA
      atgcgtcgc aacgccctg gggcgcagc ccctctcag 
      tgtctcctc tgcggcgat ggttttgga atgttgggg 
      gcccagaaa gtgctctgt atcgactgt cgccgtcta 
      gtgtgccaa aaatgtgcc attgaaacg tatactaaa 
      gcagcacgt aactattgg ttgtgtatg atttgtgcc 
      gaaacgcgc gaaatttgg aaaaaatca ggcgcttgg 
      tttttcaaa agcatcccc aaatatata cttccggcg 
      gaaaaaaac caaaattac agacacagt ctggggaaa 
      attggtcga aattcgaag gggaattac cgggatgaa 
      gacagctcg tcggatgag gagaggaaa atttggacg 
      aggatacag aggaggaat tctagtacg gaaagcact 
      catgatggc cacgagtcc gtccaagac gtcgccacg 
      atgtcgaca cacaagaga caatccagc gctagcgag 
      tcgcaacaa agcaaagag atggaatca ttaaaaggc 
      ttaggttcg ctgaattta agcgaaacg aaggtttgg 
      gatcaggct gagggatcc gagctatcc cggagggaa 
      tccacagtt agcagatcc ttatcagag tggaattgg 
      agcgacagc aggagcgag gatcgagtt tcgccgagt 
      acttcaagt gtgagcagc agcatattt aaaagcaac 
      ctggaggag cacaaaccc tccgaccac tccctcggc 
      accatcgag ctctccctc acctacgac cccatcacc 
      tccaccctc cattgcacc gtctaccgt gccaaaaac 
      ctcatcccc atggacatc aacggcctc tcggacccc 
      ttctgcaaa ctgaacatc ctccccaac gccaagccc 
      tcgacccgc ctccgcacc aagaccgtc cacaaaaca 
      cgcaatccc gaattcaac gaaaaccta actttctac 
      gacatctcc gagagcgac ctctcgaag aaggccctc 
      cacgtcctg gtggtggac gacgataag ttcggacac 
      gactacatg ggcgagacc aggatcgga ctggccaaa 
      ctcaaacaa caaaacacc atctacgtg gccgcctct 
      ctggaggag atgcgacac gagcaaaag gggccactc 
      ccagcaccc gaattgaac caatggttc gacgatttg 
      tggtcacgt ggacaaatc ctcctatcg ctgtgctac 
      agcaccaag aggagggcg ttgctggtg atggtgtgc 
      aggtgtgcc aacttactg ccaatggac aataacggg 
      ttctccgac ccgtttgtt aaactgcaa ttacgacca 
      gatccttgc caccgcaag cacaagact tccattaaa 
      tggaaaaat cttaacccg gtttataac gaggagttt 
      gcgtttgag acacgtccc acagagttg gccacgcaa 
      agtctctat atcacagtc tatgataag gactatggc 
      aaaagtaac gattatttg gggggtttg atcctagga 
      ggcaccgga tcgaaggga ctgaggttg aaacaatgg 
      ttggatatg attagatat ccggatcat agacatgaa 
      gcctggcat aacttaacc gaagaaatt ctagattga
    mRNA sequence
    • >TC015653 RA
      ctcaagcaa cgaccaacg tgatttatt tcacccttt 
      ttgtccatg gtaaacaat ggtcgattg tggagccaa 
      cgatgctac caacagatt tgtttgtcc caatgatcg 
      gcaattggc gcttcgagc caagttggg cgtctggtc 
      gagcgtctg gaaaacatg cgtcgcaac gccctgggg 
      cgcagcccc tctcagtgt ctcctctgc ggcgatggt 
      tttggaatg ttgggggcc cagaaagtg ctctgtatc 
      gactgtcgc cgtctagtg tgccaaaaa tgtgccatt 
      gaaacgtat actaaagca gcacgtaac tattggttg 
      tgtatgatt tgtgccgaa acgcgcgaa atttggaaa 
      aaatcaggc gcttggttt ttcaaaagc atccccaaa 
      tatatactt ccggcggaa aaaaaccaa aattacaga 
      cacagtctg gggaaaatt ggtcgaaat tcgaagggg 
      aattaccgg gatgaagac agctcgtcg gatgaggag 
      aggaaaatt tggacgagg atacagagg aggaattct 
      agtacggaa agcactcat gatggccac gagtccgtc 
      caagacgtc gccacgatg tcgacacac aagagacaa 
      tccagcgct agcgagtcg caacaaagc aaagagatg 
      gaatcatta aaaggctta ggttcgctg aatttaagc 
      gaaacgaag gtttgggat caggctgag ggatccgag 
      ctatcccgg agggaatcc acagttagc agatcctta 
      tcagagtgg aattggagc gacagcagg agcgaggat 
      cgagtttcg ccgagtact tcaagtgtg agcagcagc 
      atatttaaa agcaacctg gaggagcac aaaccctcc 
      gaccactcc ctcggcacc atcgagctc tccctcacc 
      tacgacccc atcacctcc accctccat tgcaccgtc 
      taccgtgcc aaaaacctc atccccatg gacatcaac 
      ggcctctcg gaccccttc tgcaaactg aacatcctc 
      cccaacgcc aagccctcg acccgcctc cgcaccaag 
      accgtccac aaaacacgc aatcccgaa ttcaacgaa 
      aacctaact ttctacgac atctccgag agcgacctc 
      tcgaagaag gccctccac gtcctggtg gtggacgac 
      gataagttc ggacacgac tacatgggc gagaccagg 
      atcggactg gccaaactc aaacaacaa aacaccatc 
      tacgtggcc gcctctctg gaggagatg cgacacgag 
      caaaagggg ccactccca gcacccgaa ttgaaccaa 
      tggttcgac gatttgtgg tcacgtgga caaatcctc 
      ctatcgctg tgctacagc accaagagg agggcgttg 
      ctggtgatg gtgtgcagg tgtgccaac ttactgcca 
      atggacaat aacgggttc tccgacccg tttgttaaa 
      ctgcaatta cgaccagat ccttgccac cgcaagcac 
      aagacttcc attaaatgg aaaaatctt aacccggtt 
      tataacgag gagtttgcg tttgagaca cgtcccaca 
      gagttggcc acgcaaagt ctctatatc acagtctat 
      gataaggac tatggcaaa agtaacgat tatttgggg 
      ggtttgatc ctaggaggc accggatcg aagggactg 
      aggttgaaa caatggttg gatatgatt agatatccg 
      gatcataga catgaagcc tggcataac ttaaccgaa 
      gaaattcta gattgaatt attggacca aattgtaat 
      aaatttaat caaagctt
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