Status
Please wait ...
Gene information
General information
TC007940 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_007419.2: 2978471..2980523
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
    TC007940
    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_01288

    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: 20.0% (includes death as pupa, adult)

    potentially confused/crosscontaminated with : iB # (comma separated) 1289
    Possible contamination on transfer daz by maybe one beetle
    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Pupal morphology
    potentially confused/crosscontaminated with : iB # (comma separated) 1289
    Possible contamination on transfer daz by maybe one beetle
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007940 RA
      MSRIGKEIL HSTRRLTSV HYSNNIGRI LNATFSTSE 
      QSNQSNEYD VVVVGGGIV GAASAREIL LRHKNLRMA 
      IVEKEHKLA VHQSGHNSG VIHAGIYYK PGSLKAKLC 
      VEGLHLAYK YCDTKKIPY KKVGKLIVA TNALEQKRL 
      ADLHERGIQ NQVPDLKVL KGVEEIKKI EPYCQGVEA 
      LWSPHTGIV DWGLVTEYY GRDFRDSGG DIFFDFEVN 
      GFKESTNGA FPVTITARN GKSVNAKYV LTCGGLYSD 
      KLSELSGCS RDPRIVPIR GEYLLLNPK KCHMVKGNI 
      YPVPDPRFP FLGVHYTPR MDGSVWLGP NAVPAFRKE 
      GYTWFDINM KELVDAFSY RGFQKLIFR NVGYGVQEV 
      MKSAFSRLQ LKDLQKYIP EVRAEDIKR GPAGVRAQA 
      LDIDGNLVD DFVFDLGKG GIAKRILHC RNAPSPGAT 
      SSLAIAKMV ADRLEKEFE FAKSATV
    CDS sequence
    • >TC007940 RA
      atgtctaga attggtaaa gaaatttta catagtacc 
      agaaggttg acttctgta cattattca aataatatt 
      ggcagaatc ttaaacgcc actttttcc acaagcgaa 
      cagagcaac caaagcaac gaatacgat gtggtggtg 
      gtcggcggc ggcatcgtg ggcgccgcc tccgcccgc 
      gaaatcctc ctccgccac aaaaatctc cgcatggca 
      atagtggaa aaagagcac aaattagcc gtgcaccaa 
      agtggccac aacagcggc gtcatccat gccggtatt 
      tactacaag cccggctca ctcaaagcc aaactttgc 
      gtggaaggc ctgcacttg gcctacaaa tactgcgac 
      accaaaaaa ataccttac aaaaaagtt ggcaaacta 
      atcgtcgca acgaatgct ttagaacaa aaacgatta 
      gctgattta cacgaacgc ggcatccag aaccaagtg 
      cccgacttg aaagtactg aaaggcgtt gaggaaatt 
      aagaaaatt gagccgtac tgtcaaggg gttgaagct 
      ttgtggtcc ccgcacacg gggattgtc gactggggg 
      ttggttacg gagtattac gggcgggat tttagggac 
      agcggaggc gatatcttt tttgatttt gaggtcaat 
      ggttttaaa gagtcgaca aatggtgcg tttcctgta 
      accatcact gccagaaac ggcaagtcg gtgaatgct 
      aaatacgtc ctaacttgt ggtgggttg tactctgat 
      aaattatcc gagctgtct gggtgttct cgtgacccc 
      aggattgtc ccaatccgt ggggaatac ctccttctc 
      aacccgaaa aaatgccac atggtgaag ggcaacatc 
      tacccggtc cctgatccc agattcccc tttctgggg 
      gtacattac acgccccga atggatggc agtgtttgg 
      cttgggcca aacgccgtt ccagccttt agaaaagaa 
      ggttacacg tggtttgac atcaacatg aaggaacta 
      gttgatgcg ttttcctac cgtggtttc cagaaactg 
      attttcaga aatgtagga tacggtgtg caagaagtt 
      atgaagtcg gcgttcagt cgtttgcag ttgaaggat 
      ttgcaaaag tatattccg gaagttaga gctgaagat 
      atcaaacgc gggccggct ggggtcagg gcgcaggct 
      ttagacatc gatggtaat ttagtggac gattttgtg 
      tttgatttg gggaaaggg ggaattgcg aagaggatt 
      ctccactgc aggaatgcc cccagtccg ggggctacc 
      agttccctg gcgattgcc aaaatggta gcagaccgg 
      ctcgaaaaa gagtttgag tttgccaaa agcgcaaca 
      gtgtga
    mRNA sequence
    • >TC007940 RA
      ctacatttt ttatttaat aatgttttt tttaatctt 
      tacatattt gtaatgtta attacaaaa acccaataa 
      cgccccaat ccgtaactt gtcagtttt tttggcttg 
      caatcattg ttcccatat ctagtattc agaattgga 
      atttttgca tctaataaa gtgataact gataatatg 
      ccatttatc cgacaatgt caaatgagt aaaatgaat 
      atgcagctt agcggctta aacccacag tatttgtgt 
      acacagatt tattagtga ccccttttt tattaattt 
      gtgaacagt gaaagtgta gggaataag cggtgcata 
      ctagtaacg ggaattaaa ttttatgta aaaattatg 
      tctagaatt ggtaaagaa attttacat agtaccaga 
      aggttgact tctgtacat tattcaaat aatattggc 
      agaatctta aacgccact ttttccaca agcgaacag 
      agcaaccaa agcaacgaa tacgatgtg gtggtggtc 
      ggcggcggc atcgtgggc gccgcctcc gcccgcgaa 
      atcctcctc cgccacaaa aatctccgc atggcaata 
      gtggaaaaa gagcacaaa ttagccgtg caccaaagt 
      ggccacaac agcggcgtc atccatgcc ggtatttac 
      tacaagccc ggctcactc aaagccaaa ctttgcgtg 
      gaaggcctg cacttggcc tacaaatac tgcgacacc 
      aaaaaaata ccttacaaa aaagttggc aaactaatc 
      gtcgcaacg aatgcttta gaacaaaaa cgattagct 
      gatttacac gaacgcggc atccagaac caagtgccc 
      gacttgaaa gtactgaaa ggcgttgag gaaattaag 
      aaaattgag ccgtactgt caaggggtt gaagctttg 
      tggtccccg cacacgggg attgtcgac tgggggttg 
      gttacggag tattacggg cgggatttt agggacagc 
      ggaggcgat atctttttt gattttgag gtcaatggt 
      tttaaagag tcgacaaat ggtgcgttt cctgtaacc 
      atcactgcc agaaacggc aagtcggtg aatgctaaa 
      tacgtccta acttgtggt gggttgtac tctgataaa 
      ttatccgag ctgtctggg tgttctcgt gaccccagg 
      attgtccca atccgtggg gaatacctc cttctcaac 
      ccgaaaaaa tgccacatg gtgaagggc aacatctac 
      ccggtccct gatcccaga ttccccttt ctgggggta 
      cattacacg ccccgaatg gatggcagt gtttggctt 
      gggccaaac gccgttcca gcctttaga aaagaaggt 
      tacacgtgg tttgacatc aacatgaag gaactagtt 
      gatgcgttt tcctaccgt ggtttccag aaactgatt 
      ttcagaaat gtaggatac ggtgtgcaa gaagttatg 
      aagtcggcg ttcagtcgt ttgcagttg aaggatttg 
      caaaagtat attccggaa gttagagct gaagatatc 
      aaacgcggg ccggctggg gtcagggcg caggcttta 
      gacatcgat ggtaattta gtggacgat tttgtgttt 
      gatttgggg aaaggggga attgcgaag aggattctc 
      cactgcagg aatgccccc agtccgggg gctaccagt 
      tccctggcg attgccaaa atggtagca gaccggctc 
      gaaaaagag tttgagttt gccaaaagc gcaacagtg 
      tgaataata acacaataa agcaattag ttccaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY