Status
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Gene information
General information
TC002992 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: 5173551..5175275
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
    TC002992
    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
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    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00494

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 4
    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: 0.0% (includes death as larva, prepupa, pupa, adult)

    remarks: later than schedule,
    Pupal morphology
    remarks: later than schedule,
    Adult morphology
    remarks: later than schedule,
    Fertility
    egg production: number <50% of expected -
    ovary without detectable defects - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002992 RA
      MGIGWKILV IPAVLIAFG GYKINNLLT PPLPPKLQE 
      PWWGSGDPS KQDKSIRPF TVNVSEQDL RDLQYRLDH 
      ARPFTPPLE GVQQQYGMN TNLLKEIVT FWRTKYNWR 
      EREKLFNKY PQFLTNIQG LDIHYIHVK PKATTLKVL 
      PLLLLHGWP GSVREFYET IPILTTPQK GKTFVFEVI 
      VASLPGYGF SQAAVRPGL GAAQMAGVF KNLMKRLGF 
      EKYYIQGGD FGHIVLHHL AVLYPEVVA GFHSNMCVV 
      FTPLAVLKL LVGSFFPSL VTRPEHVDR IYSVPDFAS 
      QRALETGYL HIQATKPDT LGVALRDSP VGLAAYILE 
      KFTTGTNAT HQKREDGGL KEYYDYADL LDNVMVYWV 
      TGSMPTAMR LYAETFNKK HMGLGISRM PVQVPSACA 
      RFKNDFYGA DGILKELYP KLLHLSDYH GGHFAAFQL 
      PETFSKDVF MAVEKFENY HAKQT
    CDS sequence
    • >TC002992 RA
      atgggaatc gggtggaaa attttagtg attccggca 
      gttttaatt gctttcggc ggctacaaa attaataat 
      ttattgaca ccgccgctg ccaccaaaa ttacaagag 
      ccgtggtgg gggagcggc gatccttcg aagcaagac 
      aagtcaatt cgccctttc acagttaac gtttctgaa 
      caggatctc cgtgacttg caataccgc ctggaccat 
      gcccgtccg ttcacccct cctctcgaa ggggtccag 
      cagcagtac ggcatgaac accaacttg cttaaagaa 
      atcgtaaca ttttggcgc acgaagtac aactggcgc 
      gagcgcgag aaactcttc aacaaatac ccgcaattt 
      ctcactaat atacaaggc ctcgacatc cactacatc 
      cacgttaag cccaaagcc accaccctc aaagtcttg 
      ccccttttg ctgctccat ggctggccc ggatccgtg 
      cgcgagttc tacgaaacc atccccatt ctaacaacg 
      ccccaaaaa ggcaaaacc tttgttttt gaagtcatt 
      gtggcgtcg ctccccggc tacggcttc tcccaagct 
      gcagttcgg cccggcttg ggggcggca cagatggct 
      ggggtgttc aagaatttg atgaaacgg ttagggttt 
      gaaaaatat tacatccaa ggaggggat tttgggcat 
      attgtcttg caccacttg gcggtgttg taccctgag 
      gtggttgcc ggctttcac tcgaatatg tgtgtggtt 
      tttacgcct ttggcggtt ttgaaatta ctggtgggt 
      tcgtttttc ccgtctttg gtcacaagg cccgaacat 
      gtggatcgt atttattca gtcccggat tttgcaagt 
      cagagggca cttgagact ggatatttg catattcaa 
      gccacgaaa cccgacact cttggtgtg gctttgagg 
      gattcaccc gtggggctg gcagcctat attttggaa 
      aaatttacc actgggact aacgcaact catcaaaaa 
      cgtgaagat gggggtttg aaagaatat tatgattat 
      gcggatctt ttggataat gtgatggtt tattgggtt 
      acgggatca atgcctact gctatgcgg ctatatgcc 
      gagacattt aataaaaaa cacatgggt ttgggaatt 
      agcagaatg ccagtgcaa gtcccaagt gcctgtgct 
      aggtttaaa aatgatttt tatggagct gatggaatt 
      ctgaaagaa ctctaccct aaattactc cacctgtct 
      gattaccat ggcggacat tttgcggca tttcagttg 
      cctgaaact ttcagtaaa gatgtgttt atggcagtt 
      gaaaaattt gaaaattat catgccaaa caaacttga
    mRNA sequence
    • >TC002992 RA
      ttgataata aacccgaac tgtagttta gtttcaact 
      ttttcatat cgtagatag ggttctagt acgagtgta 
      aatttgtga taaaaacaa tgggaatcg ggtggaaaa 
      ttttagtga ttccggcag ttttaattg ctttcggcg 
      gctacaaaa ttaataatt tattgacac cgccgctgc 
      caccaaaat tacaagagc cgtggtggg ggagcggcg 
      atccttcga agcaagaca agtcaattc gccctttca 
      cagttaacg tttctgaac aggatctcc gtgacttgc 
      aataccgcc tggaccatg cccgtccgt tcacccctc 
      ctctcgaag gggtccagc agcagtacg gcatgaaca 
      ccaacttgc ttaaagaaa tcgtaacat tttggcgca 
      cgaagtaca actggcgcg agcgcgaga aactcttca 
      acaaatacc cgcaatttc tcactaata tacaaggcc 
      tcgacatcc actacatcc acgttaagc ccaaagcca 
      ccaccctca aagtcttgc cccttttgc tgctccatg 
      gctggcccg gatccgtgc gcgagttct acgaaacca 
      tccccattc taacaacgc cccaaaaag gcaaaacct 
      ttgtttttg aagtcattg tggcgtcgc tccccggct 
      acggcttct cccaagctg cagttcggc ccggcttgg 
      gggcggcac agatggctg gggtgttca agaatttga 
      tgaaacggt tagggtttg aaaaatatt acatccaag 
      gaggggatt ttgggcata ttgtcttgc accacttgg 
      cggtgttgt accctgagg tggttgccg gctttcact 
      cgaatatgt gtgtggttt ttacgcctt tggcggttt 
      tgaaattac tggtgggtt cgtttttcc cgtctttgg 
      tcacaaggc ccgaacatg tggatcgta tttattcag 
      tcccggatt ttgcaagtc agagggcac ttgagactg 
      gatatttgc atattcaag ccacgaaac ccgacactc 
      ttggtgtgg ctttgaggg attcacccg tggggctgg 
      cagcctata ttttggaaa aatttacca ctgggacta 
      acgcaactc atcaaaaac gtgaagatg ggggtttga 
      aagaatatt atgattatg cggatcttt tggataatg 
      tgatggttt attgggtta cgggatcaa tgcctactg 
      ctatgcggc tatatgccg agacattta ataaaaaac 
      acatgggtt tgggaatta gcagaatgc cagtgcaag 
      tcccaagtg cctgtgcta ggtttaaaa atgattttt 
      atggagctg atggaattc tgaaagaac tctacccta 
      aattactcc acctgtctg attaccatg gcggacatt 
      ttgcggcat ttcagttgc ctgaaactt tcagtaaag 
      atgtgttta tggcagttg aaaaatttg aaaattatc 
      atgccaaac aaacttgat ttttcactt ttttgtatt 
      tgaattatt aaaattatg tttttaata aagttatgt 
      tgagttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY