Status
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Gene information
General information
TC000039 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: 10642945..10655101
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
    TC000039
    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 *
    {{ 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
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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02967

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 2
    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
    • >TC000039 RA
      MGRKKYNKP QTEAGTSKS SSKPRDESE KGDFESRKR 
      NTREFSNSN FRRSGGNLR KEDDRKSEP FKRSRQDFE 
      GENRRHTRD FKRVDELLN QRQQAGGLA VLEHDGRFI 
      YYLVTKRLS SGKPTYETL FASLQKLRA HMGENNVRK 
      LAIPRIGCG LDRLQWDNV KFMVEFIFK DVDVEIVVC 
      NLEPKEDSP QQKHKNCRV TNETYPIKD IEAGTVILY 
      FSSEDESIT DEMRSLDEK FTFLREFKF ARKSLGNVI 
      FNSKTSDYL LCGCIVRKH KSDPFDFEA FRRCLQSIQ 
      KENKKYKYY YYAFQAFED QDSTINQKI INLMRNSLR 
      DVEVYVCWV GELQKEIQL NSSFNSSFG KNEASDWRS 
      RQTKDEETK DDAKSVDYW EQKCTTPAA QSAVPSTDN 
      CFEGESREK ASDYYWSED ESEAPPRPE SLHNQSEPQ 
      DSWNDLIEK EEIPDQEYA SFRRALDTK TIQNSSVKD 
      QNTTCLPKK QFSRVCLAQ ENLIIQNGV PEPGIGPHV 
      GKLLNQNGK EGDLIWTED GNNYLYCLI TNSDKPETI 
      FSAIRKLQI QVTKHNVRT LVFPKLDPE VKFMVQYVF 
      GGHKIEIIL APFESTCDV PSLKKTNGI KIVNVKSPL 
      HHMKKKSVI LYLASIDGQ LSKEMEGLS QKFDFVGRF 
      KRENKTLGA VVYHKQDEE HVLYGCIVK KSFKDSIDF 
      EALQTCLSR VNDNKINDK MSIVGIQAT GDESVNYKI 
      VTLLLHTLQ NVTINICWP GPLKEKMIT DL
    CDS sequence
    • >TC000039 RA
      atggggcgc aaaaaatac aacaagcct cagacagag 
      gctggcacc tccaaaagc tcctcaaaa ccaagggat 
      gagtccgaa aaaggggat tttgagtcg aggaagaga 
      aacacaaga gaattttca aactcgaac tttagacgc 
      tcgggtggc aatttgagg aaagaagac gaccggaaa 
      agtgaaccg ttcaagagg agcagacag gatttcgag 
      ggggaaaat aggaggcat acacgcgac tttaagcga 
      gtggatgag ttgttgaat caacggcag caagctgga 
      ggtctagct gtgcttgaa cacgatgga aggtttata 
      tactatttg gtcactaaa cggttgtcc tcggggaaa 
      cccacctac gaaaccttg ttcgcctcc ctgcaaaaa 
      ctgcgggcc catatgggc gaaaacaac gtgcgaaag 
      ttggctatt cccaggatt gggtgcggg ttggaccgc 
      ctccaatgg gacaatgtc aaattcatg gttgagttt 
      attttcaaa gatgtggac gtggagatc gtcgtttgc 
      aacctcgaa ccgaaggaa gactcaccg caacaaaaa 
      cacaaaaat tgcagagtt accaacgaa acgtatcca 
      atcaaagac attgaggca ggcactgtt atcctgtac 
      ttttcatca gaggacgaa agcatcacc gacgagatg 
      cgctccttg gacgaaaaa ttcactttc ttgcgtgaa 
      ttcaaattc gcgagaaaa tcactggga aacgtgatt 
      ttcaacagc aaaaccagc gattattta ttatgtggc 
      tgcattgtg cgaaaacac aaaagcgac cctttcgac 
      tttgaagcc ttccgaagg tgtctccag tcgattcaa 
      aaggaaaac aagaagtac aaatactat tactacgct 
      tttcaagca ttcgaagac caagattca accatcaat 
      cagaaaatt atcaatttg atgcggaat tcgttacgc 
      gatgttgaa gtttatgtg tgctgggtt ggcgaactg 
      caaaaggaa atccaactg aatagtagc ttcaattcg 
      agctttggc aaaaacgag gctagtgat tggcggtca 
      cgccagaca aaagacgag gaaacaaaa gacgatgcc 
      aaaagtgtc gattactgg gaacaaaaa tgtacaact 
      ccagcggct caaagcgcg gttccaagc acggataat 
      tgctttgag ggcgaaagt cgggaaaaa gcgtccgat 
      tattattgg tcggaagat gagagtgag gctccacct 
      agaccggaa agtttgcac aaccaatcc gagccacaa 
      gattcgtgg aacgattta atcgaaaaa gaagagata 
      cccgatcaa gaatacgct tcattccga cgagcacta 
      gacactaaa accattcaa aacagttca gttaaggac 
      caaaacacg acttgctta ccaaagaaa caattttcg 
      cgtgtttgt ttggcccaa gaaaactta attatacaa 
      aacggagtg cctgagcca ggtatcgga ccacacgtt 
      gggaagctt ctcaaccaa aacggaaaa gaaggcgac 
      ttgatttgg actgaagac ggcaataat tacctctac 
      tgtcttatt actaattcg gataaacct gagacgatt 
      ttttcggca attcggaaa ttgcaaatt caagtgacg 
      aaacacaac gttaggact ttggttttt ccaaaactg 
      gacccggaa gtcaaattt atggttcaa tacgttttt 
      ggtggacac aaaattgag atcattctt gcccccttt 
      gagtcgact tgtgatgtt ccaagtttg aagaaaacc 
      aacgggatt aagatagtg aacgtgaag tcgccgctt 
      caccacatg aaaaagaaa agtgttata ctttatctg 
      gcatcaatc gatgggcaa ctttccaag gaaatggag 
      ggcttgagc caaaaattc gactttgtg ggtcggttt 
      aaacgcgag aacaaaact ctgggtgcg gtggtctac 
      cataaacaa gacgaggaa catgttctt tacggttgt 
      attgtgaaa aaatcgttc aaggattca attgatttc 
      gaggcgtta caaacctgt ttgtcacgt gttaatgat 
      aataaaatt aatgataag atgagtatt gtcggcatt 
      caagcaact ggtgatgag agtgttaac tataaaata 
      gttactttg ttgttgcat acgttgcaa aatgttacg 
      atcaacatt tgttggcca gggcccttg aaagagaaa 
      atgatcacg gacttgtga
    mRNA sequence
    • >TC000039 RA
      atggggcgc aaaaaatac aacaagcct cagacagag 
      gctggcacc tccaaaagc tcctcaaaa ccaagggat 
      gagtccgaa aaaggggat tttgagtcg aggaagaga 
      aacacaaga gaattttca aactcgaac tttagacgc 
      tcgggtggc aatttgagg aaagaagac gaccggaaa 
      agtgaaccg ttcaagagg agcagacag gatttcgag 
      ggggaaaat aggaggcat acacgcgac tttaagcga 
      gtggatgag ttgttgaat caacggcag caagctgga 
      ggtctagct gtgcttgaa cacgatgga aggtttata 
      tactatttg gtcactaaa cggttgtcc tcggggaaa 
      cccacctac gaaaccttg ttcgcctcc ctgcaaaaa 
      ctgcgggcc catatgggc gaaaacaac gtgcgaaag 
      ttggctatt cccaggatt gggtgcggg ttggaccgc 
      ctccaatgg gacaatgtc aaattcatg gttgagttt 
      attttcaaa gatgtggac gtggagatc gtcgtttgc 
      aacctcgaa ccgaaggaa gactcaccg caacaaaaa 
      cacaaaaat tgcagagtt accaacgaa acgtatcca 
      atcaaagac attgaggca ggcactgtt atcctgtac 
      ttttcatca gaggacgaa agcatcacc gacgagatg 
      cgctccttg gacgaaaaa ttcactttc ttgcgtgaa 
      ttcaaattc gcgagaaaa tcactggga aacgtgatt 
      ttcaacagc aaaaccagc gattattta ttatgtggc 
      tgcattgtg cgaaaacac aaaagcgac cctttcgac 
      tttgaagcc ttccgaagg tgtctccag tcgattcaa 
      aaggaaaac aagaagtac aaatactat tactacgct 
      tttcaagca ttcgaagac caagattca accatcaat 
      cagaaaatt atcaatttg atgcggaat tcgttacgc 
      gatgttgaa gtttatgtg tgctgggtt ggcgaactg 
      caaaaggaa atccaactg aatagtagc ttcaattcg 
      agctttggc aaaaacgag gctagtgat tggcggtca 
      cgccagaca aaagacgag gaaacaaaa gacgatgcc 
      aaaagtgtc gattactgg gaacaaaaa tgtacaact 
      ccagcggct caaagcgcg gttccaagc acggataat 
      tgctttgag ggcgaaagt cgggaaaaa gcgtccgat 
      tattattgg tcggaagat gagagtgag gctccacct 
      agaccggaa agtttgcac aaccaatcc gagccacaa 
      gattcgtgg aacgattta atcgaaaaa gaagagata 
      cccgatcaa gaatacgct tcattccga cgagcacta 
      gacactaaa accattcaa aacagttca gttaaggac 
      caaaacacg acttgctta ccaaagaaa caattttcg 
      cgtgtttgt ttggcccaa gaaaactta attatacaa 
      aacggagtg cctgagcca ggtatcgga ccacacgtt 
      gggaagctt ctcaaccaa aacggaaaa gaaggcgac 
      ttgatttgg actgaagac ggcaataat tacctctac 
      tgtcttatt actaattcg gataaacct gagacgatt 
      ttttcggca attcggaaa ttgcaaatt caagtgacg 
      aaacacaac gttaggact ttggttttt ccaaaactg 
      gacccggaa gtcaaattt atggttcaa tacgttttt 
      ggtggacac aaaattgag atcattctt gcccccttt 
      gagtcgact tgtgatgtt ccaagtttg aagaaaacc 
      aacgggatt aagatagtg aacgtgaag tcgccgctt 
      caccacatg aaaaagaaa agtgttata ctttatctg 
      gcatcaatc gatgggcaa ctttccaag gaaatggag 
      ggcttgagc caaaaattc gactttgtg ggtcggttt 
      aaacgcgag aacaaaact ctgggtgcg gtggtctac 
      cataaacaa gacgaggaa catgttctt tacggttgt 
      attgtgaaa aaatcgttc aaggattca attgatttc 
      gaggcgtta caaacctgt ttgtcacgt gttaatgat 
      aataaaatt aatgataag atgagtatt gtcggcatt 
      caagcaact ggtgatgag agtgttaac tataaaata 
      gttactttg ttgttgcat acgttgcaa aatgttacg 
      atcaacatt tgttggcca gggcccttg aaagagaaa 
      atgatcacg gacttgtga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY