Status
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Gene information
General information
TC012239 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_007424.3: 9266..11029
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
    TC012239
    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
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    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 *
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    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05195

    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: 10.0% (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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012239 RA
      MSSKEIEIE TSESFGPKK ITKSQKCDR RCAHQGDRI 
      CYNEEEDNK EVVKKIPDE TASSESVDS IELDSLHSG 
      ESLFKTFNF EASDNDPDM EKCMTFWKK ILAKNVKPI 
      KCTLLKTKK SEDKEPEKV ETEVIQDKR KDKDPCKDA 
      EIRKMWLDI YKDLQRRKL DKLKLVKSK KCEPCEEYI 
      DEELLKKQD VEDIKKLNQ WKSQKRPSA GKFDIGSQV 
      QRTLRVLKA ARTSKDESE KRQSTSETN IKHSTKLPK 
      PKTPNKTES EKAPTQPPI VKTIPQNTP GKEITQIES 
      DLSKSTAKS ASKHSTGGG AAPAPLDLS IKKSCCNCG 
      CAIDDCICA EIEELVSSC APCDCGAVC VCDPTQPQT 
      EVCSCGCDV QECICQNLE KCVCGCGVK ECLCQNVDA 
      IRGKECACG CGLDECVCE QLYTKRCKC GHADCTCDM 
      IEILTTYLE TLEASPGAS ARVDGESLR FSREAQTED 
      QALLLQTTQ KEGSYCLIC GHFNCYCNK
    CDS sequence
    • >TC012239 RA
      atgtcctca aaagaaatc gaaattgag acaagcgag 
      agctttggg cctaaaaaa ataaccaag agtcaaaaa 
      tgcgatcgc agatgtgcc catcaaggt gatcgcatt 
      tgttataac gaagaggaa gataataaa gaagtggtc 
      aaaaaaatt cctgacgaa accgcttct tccgaatct 
      gtagactcg atagaattg gacagtcta cactccgga 
      gagtcatta tttaaaaca tttaacttc gaagccagc 
      gataatgac cctgacatg gaaaaatgt atgactttt 
      tggaagaag attctggcg aaaaatgta aaaccaatc 
      aagtgcaca ttgctcaaa acgaagaaa agtgaagac 
      aaagaaccg gaaaaagtg gagacggaa gtgatacaa 
      gacaaacgg aaagataag gacccttgc aaagacgca 
      gagattcgc aaaatgtgg ttggacatc tacaaggat 
      ttgcaaaga cgaaaacta gacaagctg aagttggta 
      aagtcaaag aaatgcgaa ccgtgcgaa gaatacatc 
      gatgaagaa ctgctaaaa aaacaagac gttgaagac 
      attaaaaaa ctgaaccaa tggaaatcg caaaagaga 
      ccttctgcc ggaaaattc gacatcggt tcgcaggtc 
      cagcgcacg ctccgcgtc ctcaaagca gctcgaacc 
      tcaaaagac gagtccgag aaaagacaa tcaaccagc 
      gaaaccaac atcaaacac tccacgaaa ctacctaaa 
      cccaaaact ccaaacaaa accgaatca gaaaaggcc 
      cccacccag cccccaatt gtcaaaacc ataccacaa 
      aatacccct ggcaaagaa atcacccaa attgaatca 
      gacttgagc aaatctact gcaaaaagt gcatcaaag 
      cacagcact ggaggcggc gcagcgcct gcccctctc 
      gacctgagc ataaagaaa agttgctgc aactgtggt 
      tgcgcaatt gacgactgc atttgcgcc gaaattgaa 
      gaactggtc tcgagctgc gccccttgt gactgtggt 
      gctgtgtgc gtctgcgac cccacacag ccccagaca 
      gaagtttgt tcctgcgga tgtgacgtc caggaatgc 
      atttgccag aatttggaa aaatgtgtg tgtggttgt 
      ggcgtgaaa gagtgcctt tgtcagaat gtcgatgca 
      ataaggggg aaagaatgt gcttgtggg tgtggtttg 
      gatgagtgt gtttgcgaa caattgtac acaaagagg 
      tgtaaatgt ggtcatgcc gactgcact tgcgatatg 
      atcgagatc ctgaccact tatttggag actttggag 
      gcttcgccc ggggctagt gctagagtg gacggggag 
      agtttgaga tttagcaga gaggcgcag actgaggac 
      caagccttg ctgctgcag acgacccag aaggagggc 
      tcctattgc ttgatctgt ggacatttc aattgttac 
      tgtaataaa tga
    mRNA sequence
    • >TC012239 RA
      gctctcatc tatacagaa ctgtcaaac ttgaaattt 
      gtggcaaat gacaataaa atgtcctca aaagaaatc 
      gaaattgag acaagcgag agctttggg cctaaaaaa 
      ataaccaag agtcaaaaa tgcgatcgc agatgtgcc 
      catcaaggt gatcgcatt tgttataac gaagaggaa 
      gataataaa gaagtggtc aaaaaaatt cctgacgaa 
      accgcttct tccgaatct gtagactcg atagaattg 
      gacagtcta cactccgga gagtcatta tttaaaaca 
      tttaacttc gaagccagc gataatgac cctgacatg 
      gaaaaatgt atgactttt tggaagaag attctggcg 
      aaaaatgta aaaccaatc aagtgcaca ttgctcaaa 
      acgaagaaa agtgaagac aaagaaccg gaaaaagtg 
      gagacggaa gtgatacaa gacaaacgg aaagataag 
      gacccttgc aaagacgca gagattcgc aaaatgtgg 
      ttggacatc tacaaggat ttgcaaaga cgaaaacta 
      gacaagctg aagttggta aagtcaaag aaatgcgaa 
      ccgtgcgaa gaatacatc gatgaagaa ctgctaaaa 
      aaacaagac gttgaagac attaaaaaa ctgaaccaa 
      tggaaatcg caaaagaga ccttctgcc ggaaaattc 
      gacatcggt tcgcaggtc cagcgcacg ctccgcgtc 
      ctcaaagca gctcgaacc tcaaaagac gagtccgag 
      aaaagacaa tcaaccagc gaaaccaac atcaaacac 
      tccacgaaa ctacctaaa cccaaaact ccaaacaaa 
      accgaatca gaaaaggcc cccacccag cccccaatt 
      gtcaaaacc ataccacaa aatacccct ggcaaagaa 
      atcacccaa attgaatca gacttgagc aaatctact 
      gcaaaaagt gcatcaaag cacagcact ggaggcggc 
      gcagcgcct gcccctctc gacctgagc ataaagaaa 
      agttgctgc aactgtggt tgcgcaatt gacgactgc 
      atttgcgcc gaaattgaa gaactggtc tcgagctgc 
      gccccttgt gactgtggt gctgtgtgc gtctgcgac 
      cccacacag ccccagaca gaagtttgt tcctgcgga 
      tgtgacgtc caggaatgc atttgccag aatttggaa 
      aaatgtgtg tgtggttgt ggcgtgaaa gagtgcctt 
      tgtcagaat gtcgatgca ataaggggg aaagaatgt 
      gcttgtggg tgtggtttg gatgagtgt gtttgcgaa 
      caattgtac acaaagagg tgtaaatgt ggtcatgcc 
      gactgcact tgcgatatg atcgagatc ctgaccact 
      tatttggag actttggag gcttcgccc ggggctagt 
      gctagagtg gacggggag agtttgaga tttagcaga 
      gaggcgcag actgaggac caagccttg ctgctgcag 
      acgacccag aaggagggc tcctattgc ttgatctgt 
      ggacatttc aattgttac tgtaataaa tgatgctgt 
      tgcaatcgg gaacccatt tcgtaggta actactggc 
      tgtgatata ttgataaat acatatcac accagaag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY