Status
Please wait ...
Gene information
General information
TC005288 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.

NW_015452077.1: 5156..7124
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
    TC005288
    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_06096

    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: -1.0% (includes death as pupa, adult)

    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005288 RA
      TIHQEYIRR LLEELCAYY SCEPPNIQV ESPKLRPVV 
      TSFDLNGMG DWTNYVDTT DGFLMEAFS DFFYEKEEV 
      PKHDTLFEK ISKITTNLF PFRSHPEKI FLEIMKERF 
      NISGLMVKK LLIEKYSLD KQFDFLNHI FLFCDDLIF 
      PFYRRLFEK MNLRHSNWG NGVLLTSHL QDCLMDPYP 
      NFYEDCTVQ IKDTWKQCR DSLKACSLL TLQYEIKWP 
      LNIIITNEQ VNMYKEIFE VVLQVKWAL YTANHLSFT 
      EIEPKNKSF KAVAPKSTI KRLKYLRFN LINILNTIN 
      HYLFGFVFT KHRIQFELD FEKSNDLKS LITSHEEFI 
      TSVYRSVKK IRDESRNNH GFNTLLKSV RMLKVMWNQ 
      ADYATAENL NNCHKIFKS SLEVVNPIF VY
    CDS sequence
    • >TC005288 RA
      acaattcac caggaatat attaggcgc cttttagaa 
      gaactgtgc gcttactat tcgtgtgaa cctccgaat 
      attcaggtt gaaagccca aaattgcgc ccagtggtc 
      actagtttt gatttgaac ggaatgggg gattggact 
      aattatgtc gacacgaca gatggcttc ttgatggaa 
      gcatttagt gattttttc tacgagaaa gaggaagtt 
      cctaaacac gacactctt tttgaaaaa ataagtaaa 
      atcacgacg aacttattt ccatttcgt tcacatcct 
      gagaaaatt ttcctcgaa attatgaag gaaagattt 
      aatatttca ggtcttatg gttaagaaa ctcctaatt 
      gagaaatat agtctggat aaacagttt gattttttg 
      aatcacatt tttttattt tgtgacgat ctaatattt 
      ccgttttac cgccgcctt tttgagaaa atgaatcta 
      cgtcacagc aattgggga aatggtgtg ctgttgacc 
      tcacacctc caagactgt cttatggac ccctatcca 
      aatttctac gaagattgc actgttcaa atcaaggat 
      acgtggaaa caatgtcgc gactcgctc aaagcctgc 
      tctctttta acgctccaa tacgaaatc aagtggcct 
      ctgaacatt atcataaca aatgaacaa gtaaatatg 
      tataaggaa atattcgaa gttgttttg caggtcaag 
      tgggcgctt tataccgcc aatcatctg tctttcacg 
      gaaatcgaa ccaaagaac aaatctttc aaagctgtt 
      gcccctaaa tcgacaata aagcgtctc aaatacctc 
      cgtttcaac ctgatcaac attttaaac accatcaac 
      cactatttg ttcggtttc gtgttcacc aaacaccga 
      atccagttc gaattggat ttcgaaaag tcgaacgat 
      ctcaaatca ttaataaca tcccacgag gagtttatc 
      acttccgtt taccgctcg gtgaagaag attcgagac 
      gaaagtcga aataatcac ggttttaat acgcttctg 
      aaaagtgtg cgaatgctg aaagtgatg tggaatcaa 
      gccgattat gcgaccgcc gaaaaccta aataattgc 
      cataaaatc ttcaaatcg tcgcttgaa gttgttaat 
      cccattttt gtttactga
    mRNA sequence
    • >TC005288 RA
      aaacaattc accaggaat atattaggc gccttttag 
      aagaactgt gcgcttact attcgtgtg aacctccga 
      atattcagg ttgaaagcc caaaattgc gcccagtgg 
      tcactagtt ttgatttga acggaatgg gggattgga 
      ctaattatg tcgacacga cagatggct tcttgatgg 
      aagcattta gtgattttt tctacgaga aagaggaag 
      ttcctaaac acgacactc tttttgaaa aaataagta 
      aaatcacga cgaacttat ttccatttc gttcacatc 
      ctgagaaaa ttttcctcg aaattatga aggaaagat 
      ttaatattt caggtctta tggttaaga aactcctaa 
      ttgagaaat atagtctgg ataaacagt ttgattttt 
      tgaatcaca tttttttat tttgtgacg atctaatat 
      ttccgtttt accgccgcc tttttgaga aaatgaatc 
      tacgtcaca gcaattggg gaaatggtg tgctgttga 
      cctcacacc tccaagact gtcttatgg acccctatc 
      caaatttct acgaagatt gcactgttc aaatcaagg 
      atacgtgga aacaatgtc gcgactcgc tcaaagcct 
      gctctcttt taacgctcc aatacgaaa tcaagtggc 
      ctctgaaca ttatcataa caaatgaac aagtaaata 
      tgtataagg aaatattcg aagttgttt tgcaggtca 
      agtgggcgc tttataccg ccaatcatc tgtctttca 
      cggaaatcg aaccaaaga acaaatctt tcaaagctg 
      ttgccccta aatcgacaa taaagcgtc tcaaatacc 
      tccgtttca acctgatca acattttaa acaccatca 
      accactatt tgttcggtt tcgtgttca ccaaacacc 
      gaatccagt tcgaattgg atttcgaaa agtcgaacg 
      atctcaaat cattaataa catcccacg aggagttta 
      tcacttccg tttaccgct cggtgaaga agattcgag 
      acgaaagtc gaaataatc acggtttta atacgcttc 
      tgaaaagtg tgcgaatgc tgaaagtga tgtggaatc 
      aagccgatt atgcgaccg ccgaaaacc taaataatt 
      gccataaaa tcttcaaat cgtcgcttg aagttgtta 
      atcccattt ttgtttact gattaataa agaattatt 
      tttgat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY