Status
Please wait ...
Gene information
General information
TC006673 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_007423.3: 12731993..12741157
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
    TC006673
    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_01077

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006673 RA
      MNGINGHHA NGGDLNGCG DIITQNQQK GCWTIGLIN 
      SKHRYLTAE TFGFKINAN GASLKKKQI WTLEPENSN 
      SGDSLIYLR SHLDKYLAV DSFGNITCE SEEKEPGSK 
      FQISVAEDG SGRWAFRNV VRGYFLGAT SDKLTCTAK 
      VPGDAEFWH IHLAARPQM NLRSVGRKR FAHLSENLD 
      EIHVDANIP WGEDTLFTL EFRQDEGGK YAIHTCNNK 
      YLSLGGKLV ETCNKDCLF TAEYHSGQL ALRDRCGAY 
      LSPIGSKAV LKTRSNTVT KDELFSLED SLPQASFVA 
      ALNSKFVSV KQGVDVTAN QDEISDHET FQLEFDWST 
      KRWYIRTMQ DKYWTLETG GGIQAAGDK RSSNALFDL 
      VWQNDGSVA FRANNGRYV MTKRSGHLY ATADAIDDN 
      CKYFFYLVN RPILVLKCE QGFVGYKSA SSPKLECNK 
      ATYETIQVE RGEKGIVYF KGQNNKYWH VDSEGVTAD 
      SDTPEGFYL ELREPTRLC IKTSNGNYL TAGKNGCFR 
      LGDSSIENA TQWEY
    CDS sequence
    • >TC006673 RA
      atgaacgga atcaacggc caccacgcc aacggcggc 
      gacttgaac ggctgtggc gacatcatc acccaaaac 
      cagcaaaaa ggctgttgg acaataggc ctcatcaac 
      tccaaacac cgctactta accgccgaa accttcggc 
      ttcaaaatc aacgccaac ggggcttcc ctcaaaaag 
      aagcaaatc tggacactg gaacccgaa aattccaac 
      tccggcgac agcctgatt tacttgcgc tcgcacctg 
      gacaaatac ctcgccgtc gactccttc gggaacatc 
      acctgcgag agcgaggag aaagagccc gggagtaaa 
      ttccaaatc agcgtggcg gaggacggg agcggccga 
      tgggccttc aggaacgta gtcagaggc tacttcctg 
      ggggccacc tccgacaag ctaacttgc actgccaaa 
      gtaccggga gacgccgaa ttctggcac atacacctg 
      gctgccaga ccccaaatg aacctacgt tcggtcgga 
      cgcaaacgc tttgcacat ttgtccgaa aacctggac 
      gaaatccac gttgatgcc aacatcccc tggggggag 
      gacaccctt ttcaccctc gagttccgc caggacgag 
      ggcgggaaa tacgccatt cacacgtgc aataacaag 
      tacttgtcc ctgggaggt aaactcgtg gaaacttgc 
      aacaaagac tgcctcttc actgccgaa taccacagc 
      ggccagttg gcgctccgc gaccgttgt ggggcttac 
      ttgagcccc attgggtcg aaggctgtg ctcaaaacg 
      cggtctaat actgtgacg aaagatgag cttttttcc 
      ttggaggat tccctccct caggccagt tttgttgca 
      gcgctgaat tccaagttt gtttctgtt aaacaaggt 
      gttgacgtc accgccaat caggacgaa atctccgat 
      cacgagacc ttccaattg gaattcgat tggagcacg 
      aaacgatgg tacatccgc accatgcaa gacaaatat 
      tggacactg gaaacaggc ggtgggatt caagccgcc 
      ggcgataaa cgttcctcg aatgcttta ttcgatctg 
      gtgtggcaa aatgacggt tctgtggct tttcgagca 
      aataatgga cgctatgtc atgacgaaa agatcgggt 
      catttgtat gcaacggca gacgccatc gacgacaat 
      tgcaagtat ttcttctat ttggtcaat cggcccatt 
      ttggtactg aagtgcgaa caaggcttc gtggggtac 
      aagtcagcc agcagcccc aaattggag tgcaataaa 
      gccacgtac gagaccatt caagtcgaa cggggcgaa 
      aaggggatc gtttatttc aaaggccag aacaacaaa 
      tactggcac gtcgacagc gaaggcgtt actgccgat 
      tcggacacc cccgagggc ttctatttg gagctgcgt 
      gaacccacc cgtctctgc atcaaaacc tcgaatggg 
      aattaccta acggccggt aaaaacggc tgcttccgc 
      ttgggggat tcctcgatc gagaatgcc acccagtgg 
      gagtattaa
    mRNA sequence
    • >TC006673 RA
      ccggtattg gtcggcccg tttcagtcc catcgcgat 
      tcttcattg gtgttggtg aggtgacaa gtgacgatc 
      gaagaacta cttgatccg atttttcat tttttgtga 
      gtgtttgtg tgcgtgcaa ggcctaccg ggactaaag 
      agtgttaag aatgaacgg aatcaacgg ccaccacgc 
      caacggcgg cgacttgaa cggctgtgg cgacatcat 
      cacccaaaa ccagcaaaa aggctgttg gacaatagg 
      cctcatcaa ctccaaaca ccgctactt aaccgccga 
      aaccttcgg cttcaaaat caacgccaa cggggcttc 
      cctcaaaaa gaagcaaat ctggacact ggaacccga 
      aaattccaa ctccggcga cagcctgat ttacttgcg 
      ctcgcacct ggacaaata cctcgccgt cgactcctt 
      cgggaacat cacctgcga gagcgagga gaaagagcc 
      cgggagtaa attccaaat cagcgtggc ggaggacgg 
      gagcggccg atgggcctt caggaacgt agtcagagg 
      ctacttcct gggggccac ctccgacaa gctaacttg 
      cactgccaa agtaccggg agacgccga attctggca 
      catacacct ggctgccag accccaaat gaacctacg 
      ttcggtcgg acgcaaacg ctttgcaca tttgtccga 
      aaacctgga cgaaatcca cgttgatgc caacatccc 
      ctgggggga ggacaccct tttcaccct cgagttccg 
      ccaggacga gggcgggaa atacgccat tcacacgtg 
      caataacaa gtacttgtc cctgggagg taaactcgt 
      ggaaacttg caacaaaga ctgcctctt cactgccga 
      ataccacag cggccagtt ggcgctccg cgaccgttg 
      tggggctta cttgagccc cattgggtc gaaggctgt 
      gctcaaaac gcggtctaa tactgtgac gaaagatga 
      gcttttttc cttggagga ttccctccc tcaggccag 
      ttttgttgc agcgctgaa ttccaagtt tgtttctgt 
      taaacaagg tgttgacgt caccgccaa tcaggacga 
      aatctccga tcacgagac cttccaatt ggaattcga 
      ttggagcac gaaacgatg gtacatccg caccatgca 
      agacaaata ttggacact ggaaacagg cggtgggat 
      tcaagccgc cggcgataa acgttcctc gaatgcttt 
      attcgatct ggtgtggca aaatgacgg ttctgtggc 
      ttttcgagc aaataatgg acgctatgt catgacgaa 
      aagatcggg tcatttgta tgcaacggc agacgccat 
      cgacgacaa ttgcaagta tttcttcta tttggtcaa 
      tcggcccat tttggtact gaagtgcga acaaggctt 
      cgtggggta caagtcagc cagcagccc caaattgga 
      gtgcaataa agccacgta cgagaccat tcaagtcga 
      acggggcga aaaggggat cgtttattt caaaggcca 
      gaacaacaa atactggca cgtcgacag cgaaggcgt 
      tactgccga ttcggacac ccccgaggg cttctattt 
      ggagctgcg tgaacccac ccgtctctg catcaaaac 
      ctcgaatgg gaattacct aacggccgg taaaaacgg 
      ctgcttccg cttggggga ttcctcgat cgagaatgc 
      cacccagtg ggagtatta attcgttcg tctatttat 
      tgtatttat gttagtttt tacgctcct attatttta 
      aggatcaat gtgatgtta ttaatgtca aaattgcaa 
      aactagcca atgagaaaa ccgactgcc aaatgtatg 
      gccttcaca cactgtggt gttttgatg cttttttat 
      tactactat atttaaata tagggtttt ttctatact 
      gtgtactgt atataccga taggtttga tgttgttgt 
      catttgtat ctagagtga cattaccag taatgcatt 
      taactgaac ttagtggcg tccaagctc aaaatgtac 
      cggttttac atatcgtag gtataagag cttgtattt 
      ttacctgta gcttgtagc aataccgtt tttccaatt 
      tgtatgata aatgtaata aaac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY