Status
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Gene information
General information
TC003476 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: 5680370..5683084
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
    TC003476
    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
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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_07967

    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: % (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
    • >TC003476 RA
      MPQRKKPFS GKAKKEQLK AKKQSKQNA PQEGFGSRN 
      RRPLLKTNA GDSEDQPQI QKFNYCPPK DGRDRNRYA 
      LQFYRETPA ELKARKEEA CKTIEPVSE KELEIDSND 
      YFPKDLGFP RRPPWSYEL TTEQLEARE TKYFNDYVN 
      GILEKYNWK ELSFFELNL ETWRQLWRV LEMSDIVLH 
      IVDIRYPAH MFPPSLYEY VTETLKKDF ILVLNKIDL 
      APAPLVVAW KKYFEENYP NLHICMFTT LPGYNLVGT 
      QVNRAGLQV RKRKGKFRL AAEGSQQLF EVCKTIVGD 
      NIDISSWQT KIKEEMNLE YENDEDEKV EIGETVQMK 
      AVDTSYFEH EKYKNGILT IGCLGQPNV GKSSLINAI 
      MGKKVVSVS RTPGHTKHF QTIFLTPNV RLCDCPGLV 
      FPSKTPKVI QVLMGSFPI AQLREPFTT IKYLAERMD 
      LPNMLRIEH PENDDTWCA MDICDGWAK KRGFLTAKA 
      ARLDSYRAA NDLLRMALD GKICLCLRP PKYSNKKDY 
      WASHPEIEK VKWIQAKSD DSTQLADDK DYLSDASDE 
      DNVPGSSGD HKDRSSEES EDEETDSDE EPTNYAHNK 
      FAALADDD
    CDS sequence
    • >TC003476 RA
      atgcctcag cgcaagaaa ccgttcagt ggcaaagcc 
      aagaaagag cagctaaag gccaaaaaa cagtccaaa 
      cagaacgcc cctcaagaa ggttttggt tcccggaac 
      cggcggcct ttgctgaag accaacgcc ggtgatagt 
      gaggatcag ccccaaatt caaaaattc aattactgt 
      ccccctaag gacgggcga gaccgcaac cgttatgcc 
      ttgcagttt taccgcgag actcccgct gagctcaaa 
      gcacgtaaa gaagaggct tgcaaaacc atagaacct 
      gtctctgag aaagagctg gaaattgac tcaaatgac 
      tattttccc aaagacttg ggctttcct cgaaggcct 
      ccgtggtca tatgaactc acgactgaa cagctcgaa 
      gcacgcgaa accaaatat tttaatgat tatgttaat 
      ggaatcttg gaaaagtat aattggaaa gagttaagt 
      ttctttgaa ctgaacttg gagacgtgg cggcagttg 
      tggcgtgtt ctcgaaatg tcagatatt gttctgcac 
      attgttgat atcagatat cccgcccac atgtttccc 
      ccatctttg tacgaatac gtgactgaa acattgaag 
      aaagacttt attttagta ttgaataaa attgatttg 
      gccccagcg ccgttagtc gtggcgtgg aaaaaatac 
      tttgaggag aattacccc aatttgcac atttgcatg 
      tttaccaca ctccctggc tataatcta gttggcacc 
      caagtgaac agagctggt ctccaagta cgtaaacgc 
      aaaggcaag ttccgattg gctgcagaa gggagtcaa 
      cagttgttt gaagtttgt aaaaccata gttggggat 
      aacatagac ataagttct tggcaaact aaaataaag 
      gaagaaatg aatttggaa tacgaaaac gatgaagac 
      gagaaagtt gaaattgga gaaacagtt caaatgaaa 
      gcagtggac acgagttac ttcgaacac gaaaaatac 
      aaaaacggt atcctcaca atcggctgc ttgggccaa 
      cccaacgtc ggcaaatcg tcacttatt aacgcaatc 
      atgggcaag aaagtcgtc agcgtgtcc agaactcca 
      ggccatacg aaacacttc caaacaatt tttttaaca 
      cccaatgtg cggctatgt gactgtcct ggtctagtc 
      tttccgtcg aaaacacca aaggttata caggttttg 
      atggggagt ttccccatc gcccaactt agggagccg 
      tttacaacg attaagtat ttagcggaa cgcatggat 
      ctaccaaat atgctgagg attgaacat ccagaaaat 
      gacgatact tggtgtgca atggacatt tgcgatggc 
      tgggccaaa aaacggggt tttctcaca gccaaagcc 
      gccaggttg gacagctac agagctgcg aatgattta 
      ctgaggatg gctttggac gggaaaatt tgcctgtgt 
      ctcaggcca cctaagtac tcaaataaa aaagattat 
      tgggcctca cacccggag atcgagaaa gtgaagtgg 
      attcaggcc aaatctgac gattccact cagctcgca 
      gacgacaaa gactacctc tctgatgct tcagatgaa 
      gacaacgtc ccgggctcc tccggtgac cacaaagac 
      cgaagcagt gaagaaagc gaagacgaa gaaactgac 
      tcagatgaa gagccgacg aattacgcc cacaataaa 
      tttgcagcg ttggcagac gacgattga
    mRNA sequence
    • >TC003476 RA
      ttctagtaa cttccatgt gattttcta gaattcgtt 
      gattttaaa ataaaaagt caggttcac agcacaata 
      agtaaaatg cctcagcgc aagaaaccg ttcagtggc 
      aaagccaag aaagagcag ctaaaggcc aaaaaacag 
      tccaaacag aacgcccct caagaaggt tttggttcc 
      cggaaccgg cggcctttg ctgaagacc aacgccggt 
      gatagtgag gatcagccc caaattcaa aaattcaat 
      tactgtccc cctaaggac gggcgagac cgcaaccgt 
      tatgccttg cagttttac cgcgagact cccgctgag 
      ctcaaagca cgtaaagaa gaggcttgc aaaaccata 
      gaacctgtc tctgagaaa gagctggaa attgactca 
      aatgactat tttcccaaa gacttgggc tttcctcga 
      aggcctccg tggtcatat gaactcacg actgaacag 
      ctcgaagca cgcgaaacc aaatatttt aatgattat 
      gttaatgga atcttggaa aagtataat tggaaagag 
      ttaagtttc tttgaactg aacttggag acgtggcgg 
      cagttgtgg cgtgttctc gaaatgtca gatattgtt 
      ctgcacatt gttgatatc agatatccc gcccacatg 
      tttccccca tctttgtac gaatacgtg actgaaaca 
      ttgaagaaa gactttatt ttagtattg aataaaatt 
      gatttggcc ccagcgccg ttagtcgtg gcgtggaaa 
      aaatacttt gaggagaat taccccaat ttgcacatt 
      tgcatgttt accacactc cctggctat aatctagtt 
      ggcacccaa gtgaacaga gctggtctc caagtacgt 
      aaacgcaaa ggcaagttc cgattggct gcagaaggg 
      agtcaacag ttgtttgaa gtttgtaaa accatagtt 
      ggggataac atagacata agttcttgg caaactaaa 
      ataaaggaa gaaatgaat ttggaatac gaaaacgat 
      gaagacgag aaagttgaa attggagaa acagttcaa 
      atgaaagca gtggacacg agttacttc gaacacgaa 
      aaatacaaa aacggtatc ctcacaatc ggctgcttg 
      ggccaaccc aacgtcggc aaatcgtca cttattaac 
      gcaatcatg ggcaagaaa gtcgtcagc gtgtccaga 
      actccaggc catacgaaa cacttccaa acaattttt 
      ttaacaccc aatgtgcgg ctatgtgac tgtcctggt 
      ctagtcttt ccgtcgaaa acaccaaag gttatacag 
      gttttgatg gggagtttc cccatcgcc caacttagg 
      gagccgttt acaacgatt aagtattta gcggaacgc 
      atggatcta ccaaatatg ctgaggatt gaacatcca 
      gaaaatgac gatacttgg tgtgcaatg gacatttgc 
      gatggctgg gccaaaaaa cggggtttt ctcacagcc 
      aaagccgcc aggttggac agctacaga gctgcgaat 
      gatttactg aggatggct ttggacggg aaaatttgc 
      ctgtgtctc aggccacct aagtactca aataaaaaa 
      gattattgg gcctcacac ccggagatc gagaaagtg 
      aagtggatt caggccaaa tctgacgat tccactcag 
      ctcgcagac gacaaagac tacctctct gatgcttca 
      gatgaagac aacgtcccg ggctcctcc ggtgaccac 
      aaagaccga agcagtgaa gaaagcgaa gacgaagaa 
      actgactca gatgaagag ccgacgaat tacgcccac 
      aataaattt gcagcgttg gcagacgac gattgaaac 
      aaccacgat gttgagtat ttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY