Status
Please wait ...
Gene information
General information
TC000049 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_007418.3: 10766785..10773290
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
    TC000049
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00007

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (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 embryo/egg - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 8 (19 dpi)
    Days post injection



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000049 RA
      MSFQFNNQP LGNGAIVPT GGQSGFVPS DASDFSIFP 
      PGLNDSPLE FNMNKNKTS VARSVDDKD DSSLSPSDK 
      RDRRRIERR DRDRRDTDK SRDDSDSNM SSSQDVIPI 
      QNGSSLGPN MWGGMMGMG YPMVGMNMI MDPNMISMN 
      NYGMMPPMM APDPNMMTP DPNMLINPV KEIIHCKSC 
      TLFPPNPNA PPPTTRERP PGCRTVFVG GLPENMTEE 
      IITEVFERC GEITTLRLS KKNFCHIRF VYEASVDAA 
      IFLSGYRIR IGSNSDTPN TGRLHVDYA QARDDQYEW 
      ECRQRQLQR EQRHRERME EERLRPPSP PPVVHYTDH 
      EAIAIAEKI KQDDTFTKA VLVVITWLE RGDCNKRNA 
      NNFYSMIQS TNSHVRRLL NEKSQYEEE LKKAKEIMK 
      GRMQGILLQ FSQIERLFV AACHKKVWD HFTKAQRKN 
      IETWKKLSM EIKNVQLDE PASDKADDE MDVSDEDEP 
      TKKKHRNDG ASEERNNLK DENESLRCQ MEAYKNEVE 
      VLKMDYKKE LDDKDKQFK LLQQTLQGM QQQLIEARR 
      KQTEEETKV KDLQSKIKQ LETKQSDKD IITLDDSES 
      NQAETTSES TCDVQRLNE CDAKLVGII SAFLNVHPF 
      GAGLDYIWS YVSKLEANL RPSDIELLM NRFPTVFKQ 
      ELVGIGANI ERRWIFNAF NTTSTN
    CDS sequence
    • >TC000049 RA
      atgagtttt caattcaac aaccaacct ttgggaaat 
      ggggcaata gtgcccacc ggaggtcag tcagggttc 
      gttccatca gatgccagc gatttttcc atttttcct 
      cccggttta aacgactct cctttggaa ttcaacatg 
      aacaagaat aagacttca gtggcacgc tcagtggac 
      gacaaagac gactcaagt ttaagtcct tcagacaaa 
      agggacaga cgccgcatt gagcgaagg gatagggat 
      cgaagggac accgataag tctcgcgat gattcagat 
      tcgaacatg tccagctcg caggatgtt atcccgatc 
      caaaacggg tccagtttg gggcccaac atgtggggc 
      ggcatgatg ggtatgggg taccccatg gtcggcatg 
      aacatgata atggacccg aacatgata tcgatgaac 
      aactacggc atgatgccc ccaatgatg gcccccgac 
      cccaatatg atgaccccc gacccgaac atgctcata 
      aatccagtc aaagaaata atccattgt aaatcctgt 
      accttattc cctccaaat cccaatgca ccgccgcct 
      acgacacga gaacggcct cccggttgt cgtactgtt 
      ttcgtcggt ggtttaccc gaaaatatg accgaggag 
      attataacg gaagttttc gaacgttgc ggtgaaatc 
      acaacttta agactgagc aaaaagaat ttctgtcat 
      atacggttc gtgtatgag gcatcggtt gatgcagcg 
      atttttctc tccggttat cgaatccgc attggttcg 
      aatagtgat accccaaat actggaagg ttgcacgtg 
      gattatgca caggctaga gacgatcag tacgaatgg 
      gagtgtcgg caaaggcag ttgcaaaga gaacagaga 
      cacagagag aggatggag gaggagaga ttgagaccg 
      ccgtcaccg ccacctgtc gtccattac acagaccac 
      gaggcgatt gcaattgcc gaaaaaatc aagcaggat 
      gatacgttt acaaaagca gtgctggtt gtaattaca 
      tggctggaa cgcggcgat tgcaataaa agaaatgcg 
      aataatttt tactcgatg atacagtcg acgaattca 
      catgtcaga agattgctc aatgaaaag tctcaatac 
      gaagaggag ttgaagaaa gccaaagaa ataatgaag 
      gggcgaatg caaggcatc ttgttacaa ttcagtcaa 
      attgagcga ttgttcgtg gcggcctgt cacaagaag 
      gtttgggac catttcacc aaagctcaa agaaagaat 
      attgagact tggaaaaag ctgtctatg gaaatcaaa 
      aatgtgcag ttggacgag cctgcaagt gacaaagcc 
      gatgatgaa atggacgtt tcggacgaa gacgaaccg 
      acgaagaag aagcatcgg aatgacggt gcgagcgaa 
      gaacggaat aacttgaag gacgagaac gaaagtctg 
      aggtgccaa atggaagca tacaagaat gaagttgaa 
      gtacttaaa atggattat aagaaagag ttggacgac 
      aaagacaag cagttcaag ttgttgcaa cagacgctt 
      caagggatg cagcagcaa ctcattgaa gctaggaga 
      aaacagact gaggaagaa accaaagtt aaggatctc 
      caatcgaag attaagcaa ttggagaca aaacaaagc 
      gataaagat atcataaca cttgacgat agtgagagt 
      aatcaagcc gagacgacg tctgaatca acttgtgac 
      gtccaacga ttgaacgaa tgcgatgct aaattggtc 
      ggaattatt tcagcgttt cttaatgtg cacccgttt 
      ggtgccgga ctggattac atttggtcg tatgtgagc 
      aaattagag gctaatttg agaccgtca gatatcgaa 
      ctgttgatg aatcggttt cctactgtt tttaaacaa 
      gagttggtc ggtattgga gccaatatc gaacgtcgg 
      tggatcttt aatgcgttt aatacgacg tccacaaat 
      taa
    mRNA sequence
    • >TC000049 RA
      ttaattgtt ttctatttt ttttaacga attcgttct 
      tgtgaacag tcggggaag ttcaatcgt caatcctcg 
      gcaagtttg gcaggtcga taaaaaatg aactgtttt 
      gttgctatt tttccttag aaactcact gtaaccatg 
      agttttcaa ttcaacaac caacctttg ggaaatggg 
      gcaatagtg cccaccgga ggtcagtca gggttcgtt 
      ccatcagat gccagcgat ttttccatt tttcctccc 
      ggtttaaac gactctcct ttggaattc aacatgaac 
      aagaataag acttcagtg gcacgctca gtggacgac 
      aaagacgac tcaagttta agtccttca gacaaaagg 
      gacagacgc cgcattgag cgaagggat agggatcga 
      agggacacc gataagtct cgcgatgat tcagattcg 
      aacatgtcc agctcgcag gatgttatc ccgatccaa 
      aacgggtcc agtttgggg cccaacatg tggggcggc 
      atgatgggt atggggtac cccatggtc ggcatgaac 
      atgataatg gacccgaac atgatatcg atgaacaac 
      tacggcatg atgccccca atgatggcc cccgacccc 
      aatatgatg acccccgac ccgaacatg ctcataaat 
      ccagtcaaa gaaataatc cattgtaaa tcctgtacc 
      ttattccct ccaaatccc aatgcaccg ccgcctacg 
      acacgagaa cggcctccc ggttgtcgt actgttttc 
      gtcggtggt ttacccgaa aatatgacc gaggagatt 
      ataacggaa gttttcgaa cgttgcggt gaaatcaca 
      actttaaga ctgagcaaa aagaatttc tgtcatata 
      cggttcgtg tatgaggca tcggttgat gcagcgatt 
      tttctctcc ggttatcga atccgcatt ggttcgaat 
      agtgatacc ccaaatact ggaaggttg cacgtggat 
      tatgcacag gctagagac gatcagtac gaatgggag 
      tgtcggcaa aggcagttg caaagagaa cagagacac 
      agagagagg atggaggag gagagattg agaccgccg 
      tcaccgcca cctgtcgtc cattacaca gaccacgag 
      gcgattgca attgccgaa aaaatcaag caggatgat 
      acgtttaca aaagcagtg ctggttgta attacatgg 
      ctggaacgc ggcgattgc aataaaaga aatgcgaat 
      aatttttac tcgatgata cagtcgacg aattcacat 
      gtcagaaga ttgctcaat gaaaagtct caatacgaa 
      gaggagttg aagaaagcc aaagaaata atgaagggg 
      cgaatgcaa ggcatcttg ttacaattc agtcaaatt 
      gagcgattg ttcgtggcg gcctgtcac aagaaggtt 
      tgggaccat ttcaccaaa gctcaaaga aagaatatt 
      gagacttgg aaaaagctg tctatggaa atcaaaaat 
      gtgcagttg gacgagcct gcaagtgac aaagccgat 
      gatgaaatg gacgtttcg gacgaagac gaaccgacg 
      aagaagaag catcggaat gacggtgcg agcgaagaa 
      cggaataac ttgaaggac gagaacgaa agtctgagg 
      tgccaaatg gaagcatac aagaatgaa gttgaagta 
      cttaaaatg gattataag aaagagttg gacgacaaa 
      gacaagcag ttcaagttg ttgcaacag acgcttcaa 
      gggatgcag cagcaactc attgaagct aggagaaaa 
      cagactgag gaagaaacc aaagttaag gatctccaa 
      tcgaagatt aagcaattg gagacaaaa caaagcgat 
      aaagatatc ataacactt gacgatagt gagagtaat 
      caagccgag acgacgtct gaatcaact tgtgacgtc 
      caacgattg aacgaatgc gatgctaaa ttggtcgga 
      attatttca gcgtttctt aatgtgcac ccgtttggt 
      gccggactg gattacatt tggtcgtat gtgagcaaa 
      ttagaggct aatttgaga ccgtcagat atcgaactg 
      ttgatgaat cggtttcct actgttttt aaacaagag 
      ttggtcggt attggagcc aatatcgaa cgtcggtgg 
      atctttaat gcgtttaat acgacgtcc acaaattaa 
      atattgtag tcactgttt tgatctgtt tcacacttt 
      accagtgcg ttgtttatt tatttctag ttgaataaa 
      agttagtaa aggtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY