Status
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Gene information
General information
TC003984 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: 29244203..29260934
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
    TC003984
    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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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03663

    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)

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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection


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


    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection


    Pupal morphology
    dorsal thoracic muscles pattern irregular - Number of animals showing the phenotype: 3

    Adult morphology
    head - Number of animals showing the phenotype: 4

    Comment: Head and pronotum bent inwards towards the ventral side!!!

    elytra surface irregular - Number of animals showing the phenotype: 4


    elytra dorsal orientation not closed - Number of animals showing the phenotype: 2


    thorax - Number of animals showing the phenotype: 4
    Comment: Head and pronotum bent inwards towards the ventral side!!!

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003984 RA
      MPGSLTGSY RSLSGTSDV YRSTTVAGG GGGNAATGI 
      LEGMKKAFS FMAGGTAAT KDQKLIERV ASGGPVVIS 
      SRTENSNSN NRKMPASGV AEEAALLGT MPSDSMDDI 
      ELKNIQLQF PSTRSLSRD DSSAQEEVV ETDRGNLVV 
      AVQGSRNKP AILTYHDLG LNYVSSFQA FFNYIDMRA 
      LLENFCVYH VNAPGQEEG SATLPEDYI YPTMDELAG 
      QLGYVLSHF GLKQFIGFG VGAGANILA RFALNNPNQ 
      VTALCLINC VSTQAGWIE WGYQKLNAR HLRSKGMTQ 
      GVLDYLMWH HFGRNTEER NHDLVQVYK SYFERNVNP 
      TNLALFIDS YVRRTDLNI QRELDPTKR KESTTLKMP 
      VMNITGSLS PHVDDTVTF NGRLDPTNS SWMKISDCG 
      MVLEEQPGK VAEAFRLFL QGEGYVAPL SPTKMALFR 
      KTSLEELLK SKMPNGGQW PMNVIHITE NPISAVVC
    CDS sequence
    • >TC003984 RA
      atgccaggg agcctcacc ggctcttac cgctccttg 
      tcgggcacg agcgacgtg taccgctcg accacggtg 
      gcgggtggt ggcggtggg aacgccgcc accggaatc 
      ctcgaaggc atgaagaaa gcttttagt ttcatggca 
      ggtgggaca gccgccacc aaggaccaa aaactgatc 
      gagagggtg gccagcggg gggcctgtc gtcatctca 
      tccaggaca gaaaactcc aatagtaat aacaggaaa 
      atgccagct tccggtgtg gctgaagaa gcggccctt 
      ttgggcacg atgccttca gatagcatg gacgatatc 
      gaactgaaa aatattcag cttcagttc ccttcgact 
      cggtctttg tcacgggat gattcttca gctcaggag 
      gaggtggtg gagaccgat cgagggaat ttggtggtg 
      gcggtgcaa gggtcgagg aataagccg gcgatattg 
      acctatcac gatttgggt ctcaactac gtctctagt 
      ttccaagcc ttcttcaac tacatcgac atgcgggca 
      ttactggag aacttctgc gtatatcac gtcaatgct 
      ccaggtcaa gaggaaggt tctgcgaca cttcctgaa 
      gattatatc tacccgacg atggacgag ctcgccggc 
      caactcggc tacgtcctc tcccacttt ggtttgaaa 
      caattcatc gggttcggc gtaggcgct ggtgccaat 
      attttggct cgtttcgcc ctcaataac ccgaatcaa 
      gtgaccgct ttgtgtctc atcaactgt gtgagcacc 
      caagccggc tggattgaa tggggctat cagaaatta 
      aacgcccgg catttgagg tccaaaggg atgactcag 
      ggcgttttg gattatttg atgtggcat cattttgga 
      cggaatacg gaggaaagg aaccacgac ttggtgcaa 
      gtctacaag agctatttc gaacgcaat gttaatccg 
      acgaattta gcgttgttt attgatagt tatgtgcgc 
      cgtacagat ttgaatata cagagggag ttggatccg 
      acgaagcgg aaagaatcg actacgttg aagatgccg 
      gttatgaat attacgggg tcgttgagt ccccatgtt 
      gatgatact gtcactttt aatgggcgc ttggatccc 
      accaactcg tcatggatg aagatttca gactgcggt 
      atggtcctc gaagaacaa cccggcaaa gtggccgaa 
      gctttccga ctatttctt caaggagaa ggctacgtg 
      gcgcccctg tctcccaca aaaatggct cttttccgc 
      aaaacgtcg ctggaagaa ctgctcaaa tcgaaaatg 
      cctaatggc ggacaatgg ccaatgaat gtcatccat 
      atcaccgaa aatccgata tcggctgtc gtctgttaa
    mRNA sequence
    • >TC003984 RA
      tatcagtta cctgataaa ccgccaaca aaaacccgt 
      ctccgcccc tgtccttct tcgtgaaac caagtcacg 
      tggtcttct aacgaccaa tcaggtctc atttagcat 
      tacaacatt agtgcatcc gtagaaacg tcactcttc 
      gccagtcga agcctcctc cgactgtcc caaaaatcg 
      tgttagtgt tgtgtttgc atagattca ttaaatcaa 
      aactgccat ttccaaagg cctaaccca cgatgccag 
      ggagcctca ccggctctt accgctcct tgtcgggca 
      cgagcgacg tgtaccgct cgaccacgg tggcgggtg 
      gtggcggtg ggaacgccg ccaccggaa tcctcgaag 
      gcatgaaga aagctttta gtttcatgg caggtggga 
      cagccgcca ccaaggacc aaaaactga tcgagaggg 
      tggccagcg gggggcctg tcgtcatct catccagga 
      cagaaaact ccaatagta ataacagga aaatgccag 
      cttccggtg tggctgaag aagcggccc ttttgggca 
      cgatgcctt cagatagca tggacgata tcgaactga 
      aaaatattc agcttcagt tcccttcga ctcggtctt 
      tgtcacggg atgattctt cagctcagg aggaggtgg 
      tggagaccg atcgaggga atttggtgg tggcggtgc 
      aagggtcga ggaataagc cggcgatat tgacctatc 
      acgatttgg gtctcaact acgtctcta gtttccaag 
      ccttcttca actacatcg acatgcggg cattactgg 
      agaacttct gcgtatatc acgtcaatg ctccaggtc 
      aagaggaag gttctgcga cacttcctg aagattata 
      tctacccga cgatggacg agctcgccg gccaactcg 
      gctacgtcc tctcccact ttggtttga aacaattca 
      tcgggttcg gcgtaggcg ctggtgcca atattttgg 
      ctcgtttcg ccctcaata acccgaatc aagtgaccg 
      ctttgtgtc tcatcaact gtgtgagca cccaagccg 
      gctggattg aatggggct atcagaaat taaacgccc 
      ggcatttga ggtccaaag ggatgactc agggcgttt 
      tggattatt tgatgtggc atcattttg gacggaata 
      cggaggaaa ggaaccacg acttggtgc aagtctaca 
      agagctatt tcgaacgca atgttaatc cgacgaatt 
      tagcgttgt ttattgata gttatgtgc gccgtacag 
      atttgaata tacagaggg agttggatc cgacgaagc 
      ggaaagaat cgactacgt tgaagatgc cggttatga 
      atattacgg ggtcgttga gtccccatg ttgatgata 
      ctgtcactt ttaatgggc gcttggatc ccaccaact 
      cgtcatgga tgaagattt cagactgcg gtatggtcc 
      tcgaagaac aacccggca aagtggccg aagctttcc 
      gactatttc ttcaaggag aaggctacg tggcgcccc 
      tgtctccca caaaaatgg ctcttttcc gcaaaacgt 
      cgctggaag aactgctca aatcgaaaa tgcctaatg 
      gcggacaat ggccaatga atgtcatcc atatcaccg 
      aaaatccga tatcggctg tcgtctgtt aaattaata 
      ataataata accgccgcc actgctcac acaatcaca 
      ctatcaaca catatacac acacttatt tgagctgta 
      ttggaattt atggaggat ttgtcgggc gggaagctg 
      gcggacgct tcgaggaat ccccctgta tatcaagcg 
      ggacgcatt aagcatgtg atgttttcg aaaataggc 
      gctaaacta gactagaat cgattattt tttaagaga 
      tatataaag ttaggtttg aaaatggcg gcgacagtc 
      ggtataaca ggaaactat aagaaaaat gagcttaaa 
      ttttcggtc atagggggc gtgagttgt gataaattt 
      caatacaga cgtttcgtt ggccactgc ccttctgaa 
      gcacatatc taggcccag attgagtta tttaggccc 
      gcaacgaaa ttctatcac gccatatcg actaggtgc 
      gcttaacta ggacctaac aacagtgtt ttgagtttc 
      tgttgtgat tagttgacg attacgtat ttaagaaaa 
      atagctgta ggtggagct ttacctgtt gatagaaag 
      cctactatt taatgaatt ttaaggaga acccctcac 
      gaacaagca gttcttatc atttcgtaa ggttatgta 
      agataagat cggtgtcgt tggatgctg ttcggtttt 
      tatattgtt gcgatgtag ttttatgtt ttgaaatgt 
      gatgaataa tcgtattgt gcctcactt tgttaatgg 
      tttaagtta agcactatt taattttaa taaaatgtt 
      taaaacgtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY