Status
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Gene information
General information
TC013196 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_007420.3: 12439625..12447492
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
    TC013196
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_08383

    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: < 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
    • >TC013196 RA
      MLRQVWRSH KYLWTELSV SCRMLWWLL LGLCSTSGV 
      ALCPSMCQC GVTSKGRRK VQCVEGGMT EAIPTHEMD 
      AGTEVLEIS APAGDWNAL SISPTFQRF KRLEEVHIR 
      RSGLTQVGM HPFWGVPSL KLLDLTVNN ISGVADHNF 
      RGLVNLVEL NLDDNRITS LQSGVFKHL TELRILTLQ 
      RNLLDELVP RLFLKLGKL HMLKLSGNK FDELNPEVF 
      KDIPELRVL ECRECGLRR INTQIYHLL PYLSHLDLG 
      DNQMQFIAS DEFRDLKRL HSLKLDGNQ LPVVLEHTF 
      VRQQELKYL CLARNRLAK ITNTAFVNL SSLADLDIG 
      YNKLDRLEM QALQPVADT LERLVISGN AFGPNVIRN 
      ILNTVYNVR ELGVAHMNL RHIPKGFFP ERVRKLNVS 
      ANNLTELES GSLPRQLLE LDLSHNDLQ RLSESLILK 
      LEDLHAVSL GSNPWSCRV CDLSSIIFR LNRTNLFRN 
      VTCAAPKPL QGREISALH LEDLPGCKP PSQDAAKTG 
      RLGLVVGFA SLVSFSLVC VTFAVCSCM RRRARDAVQ 
      EQKRLAELQ ENALDRPIA IFAKGEISF KFPLDLTER 
      KVEVSTIDE IKKDTQSLP NGTGI
    CDS sequence
    • >TC013196 RA
      atgttgcgt caggtgtgg cgttcccac aaatatttg 
      tggactgaa ttgtctgtt tcctgcagg atgctgtgg 
      tggctgttg ctggggctg tgttccacc agcggcgtc 
      gccctctgc ccgtccatg tgccagtgc ggcgtgacg 
      tccaagggc cggcggaag gtgcagtgc gtcgagggc 
      ggcatgacg gaggccatc cccacgcac gagatggac 
      gccggcacc gaggtgctg gagatctcg gcgccggcc 
      ggcgactgg aacgcgctg agcatctcg ccgacgttc 
      cagcgcttc aagcgcctg gaggaggtg cacatccgg 
      cgctccggc ctcacccag gtcggcatg caccccttc 
      tggggcgtg ccctcgctc aaactgctc gatctgacg 
      gtgaataat atcagtggt gtggccgat cataacttc 
      cgcggcttg gtgaatcta gtggagttg aatttggac 
      gataacaga ataacaagt ttgcaaagc ggggttttt 
      aagcatttg accgagcta aggatattg actctgcag 
      aggaatttg ctcgacgaa ttagtgcct cggctgttt 
      ttaaaactc ggaaaactt cacatgctc aaacttagc 
      gggaataaa ttcgatgaa cttaatcca gaagtgttc 
      aaggatatt ccagaactg cgtgtcctg gaatgtcgc 
      gagtgcggc ctgcgccgc atcaacacc caaatctac 
      cacttgctg ccttattta tcccacctg gatctgggc 
      gacaaccag atgcagttc atcgcctcg gacgagttc 
      cgcgacttg aagcgtctc cacagcctg aagctggac 
      ggcaaccag ctgccggtg gtgctcgag cacaccttc 
      gtgcgccag caagaactc aagtatctg tgtttggcg 
      cgcaatcgc ttggccaaa atcaccaac acggccttc 
      gtgaacctc tcaagcctc gccgacctg gacatcggc 
      tacaacaag ctcgaccgg ctggagatg caggccctc 
      cagcccgtc gccgacacc ctcgagcgc ctcgtaatc 
      agcggcaac gcgttcggt cctaatgtg atacgcaac 
      attttgaac acagtttac aacgtgcgc gagctcggg 
      gtggcccac atgaacctg cgccacatc ccgaagggt 
      tttttcccg gagcgcgtc cggaaattg aacgtctcg 
      gcgaataat ctgaccgag ctcgagtcc gggagcctc 
      ccccggcag ctgctcgag ctcgacttg agtcacaac 
      gacttgcag cgcctctcc gagagcctc attttgaag 
      ctggaggat ttgcatgca gtgtctctc ggctctaat 
      ccctggtcg tgccgagtg tgcgattta agctccata 
      attttccgc ctaaaccgc actaatctc ttccggaac 
      gtcacgtgt gccgcgccg aagccgctc caagggcgc 
      gagatctcc gcgctgcac ctggaggac ctgcccggg 
      tgcaagccg ccgtcgcag gacgccgcc aagacgggg 
      aggctgggc ctggtggtg gggttcgcg agtttggtc 
      tcgttttcg ctggtttgt gtgacgttc gcagtgtgc 
      tcgtgtatg agaaggcgg gctagggac gcggtccag 
      gagcagaag cgactcgcg gagctgcag gagaacgcg 
      ctggatcga ccgattgcg attttcgcc aagggcgag 
      atcagcttt aagtttccg ctggatttg accgagagg 
      aaagtggaa gtctcgacg atcgacgag atcaagaaa 
      gatacacag agtttgccg aacggaacg ggaatttga
    mRNA sequence
    • >TC013196 RA
      tttcttgtt tatttgtta ataataatg tcaggttgg 
      gcagattat gttgcgtca ggtgtggcg ttcccacaa 
      atatttgtg gactgaatt gtctgtttc ctgcaggat 
      gctgtggtg gctgttgct ggggctgtg ttccaccag 
      cggcgtcgc cctctgccc gtccatgtg ccagtgcgg 
      cgtgacgtc caagggccg gcggaaggt gcagtgcgt 
      cgagggcgg catgacgga ggccatccc cacgcacga 
      gatggacgc cggcaccga ggtgctgga gatctcggc 
      gccggccgg cgactggaa cgcgctgag catctcgcc 
      gacgttcca gcgcttcaa gcgcctgga ggaggtgca 
      catccggcg ctccggcct cacccaggt cggcatgca 
      ccccttctg gggcgtgcc ctcgctcaa actgctcga 
      tctgacggt gaataatat cagtggtgt ggccgatca 
      taacttccg cggcttggt gaatctagt ggagttgaa 
      tttggacga taacagaat aacaagttt gcaaagcgg 
      ggtttttaa gcatttgac cgagctaag gatattgac 
      tctgcagag gaatttgct cgacgaatt agtgcctcg 
      gctgttttt aaaactcgg aaaacttca catgctcaa 
      acttagcgg gaataaatt cgatgaact taatccaga 
      agtgttcaa ggatattcc agaactgcg tgtcctgga 
      atgtcgcga gtgcggcct gcgccgcat caacaccca 
      aatctacca cttgctgcc ttatttatc ccacctgga 
      tctgggcga caaccagat gcagttcat cgcctcgga 
      cgagttccg cgacttgaa gcgtctcca cagcctgaa 
      gctggacgg caaccagct gccggtggt gctcgagca 
      caccttcgt gcgccagca agaactcaa gtatctgtg 
      tttggcgcg caatcgctt ggccaaaat caccaacac 
      ggccttcgt gaacctctc aagcctcgc cgacctgga 
      catcggcta caacaagct cgaccggct ggagatgca 
      ggccctcca gcccgtcgc cgacaccct cgagcgcct 
      cgtaatcag cggcaacgc gttcggtcc taatgtgat 
      acgcaacat tttgaacac agtttacaa cgtgcgcga 
      gctcggggt ggcccacat gaacctgcg ccacatccc 
      gaagggttt tttcccgga gcgcgtccg gaaattgaa 
      cgtctcggc gaataatct gaccgagct cgagtccgg 
      gagcctccc ccggcagct gctcgagct cgacttgag 
      tcacaacga cttgcagcg cctctccga gagcctcat 
      tttgaagct ggaggattt gcatgcagt gtctctcgg 
      ctctaatcc ctggtcgtg ccgagtgtg cgatttaag 
      ctccataat tttccgcct aaaccgcac taatctctt 
      ccggaacgt cacgtgtgc cgcgccgaa gccgctcca 
      agggcgcga gatctccgc gctgcacct ggaggacct 
      gcccgggtg caagccgcc gtcgcagga cgccgccaa 
      gacggggag gctgggcct ggtggtggg gttcgcgag 
      tttggtctc gttttcgct ggtttgtgt gacgttcgc 
      agtgtgctc gtgtatgag aaggcgggc tagggacgc 
      ggtccagga gcagaagcg actcgcgga gctgcagga 
      gaacgcgct ggatcgacc gattgcgat tttcgccaa 
      gggcgagat cagctttaa gtttccgct ggatttgac 
      cgagaggaa agtggaagt ctcgacgat cgacgagat 
      caagaaaga tacacagag tttgccgaa cggaacggg 
      aatttgaag cttgatggg agggatggg gtgttgtct 
      gtgggaacg cggggaaaa catatcgag aggtgctca 
      catcgagac catatcaaa cggatatag tgaattata 
      gtgcctgag ggaggggcg gggtaatga gcccgaagg 
      attgttgca atcactgat aaacgatac ggtttgtac 
      caaattttt ggcaccctg tagaatggc ccaaataaa 
      atttaaatg cagtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY