Status
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Gene information
General information
TC008963 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_007422.5: 12742017..12744571
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
    TC008963
    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_01447

    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: 2 (3 dpi)
    Days post injection


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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 30.0% (includes death as larva, prepupa, pupa, adult)

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


    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


    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008963 RA
      MNTEVKENC VITPELVEA GERYKAEAN EYFKKQNYN 
      AAIELYTKA IEANPNVAI YYGNRSFAY LKTECFGYA 
      LADASKAIE LDKGYVKGF YRRAAAHMS LGKFKEALK 
      DYEYVTKVR PNDKDAKSK YTECNKIVK KLAFEKAIS 
      VEDTKKNIA STINLDAMT IENEYTGPE LEDGKVTLK 
      FMKDLMELY KNQGKLHRK YAYKILLDV KAYFMKQPS 
      LIDVVIGDE DKFTVCGDV HGQFYDLMN IFNLNGLPS 
      ETNPYLFNG DFVDRGSFS VECIFTLFG FKLLYPNHF 
      FMSRGNHES ATMNQMYGF DGEVKAKYT AQMAELFTE 
      VYNWLPLAH CLNKRVLVM HGGLFSTDD VTLSEISKI 
      DRNRQPPED GPMCELLWS DPQTQNGRA PSKRGVGCQ 
      FGPDVTKRF LELNKLDYI IRSHEVKNN GYEVAHDGK 
      CITVFSAPN YCDTMGNQG AFITLKGKD MEPKFTTYE 
      AVPHPNVKP MAYAHSLLS LMC
    CDS sequence
    • >TC008963 RA
      atgaacaca gaagttaaa gaaaactgt gttattacc 
      cccgaacta gttgaagcc ggcgagcgc tacaaagcc 
      gaagcgaac gagtacttt aaaaaacaa aattacaac 
      gccgctata gaactttac actaaagca atcgaagca 
      aatccgaat gttgcgatc tattacggg aatcgcagt 
      tttgcctac ttgaaaact gagtgcttc ggctacgct 
      ttagccgat gcttcgaag gcaattgag ctggacaaa 
      ggctacgtt aaggggttt tacaggcgg gcggcggcc 
      cacatgagc ttgggcaag tttaaggag gccctgaag 
      gactacgaa tatgtgaca aaagtgaga cctaatgac 
      aaagacgcc aagtccaaa tatacggag tgtaacaaa 
      atagtgaag aaattggcc ttcgagaag gccatttcg 
      gtcgaagat accaaaaag aatatcgcc agtaccatt 
      aatttagat gcaatgaca atagagaac gagtacacg 
      gggcctgag cttgaggat ggaaaggtg actttaaaa 
      ttcatgaag gatttaatg gaattgtac aagaatcaa 
      ggcaagctg cacaggaaa tacgcctac aaaattttg 
      ttagacgtt aaggcgtat tttatgaaa cagccgtca 
      ctgattgat gttgtgatt ggtgatgag gataagttt 
      actgtttgt ggtgatgtc catggtcaa ttctacgac 
      cttatgaac atttttaac ttgaacggt ttaccgtct 
      gaaacaaat ccctacctc ttcaatgga gactttgtt 
      gacagaggt tcattttct gttgaatgt atttttacc 
      ctttttggg tttaaactg ttgtatccg aatcacttt 
      ttcatgtcc agaggaaat cacgaaagc gctacaatg 
      aaccaaatg tatggtttc gatggcgag gtcaaggct 
      aaatacacc gctcaaatg gctgaactt ttcaccgag 
      gtttacaac tggttacca ctagctcac tgtttgaat 
      aaaagagtt cttgtgatg catggcggt ctgttttcg 
      actgacgat gttacctta agtgaaatt agtaaaatt 
      gaccgcaac agacagccc cccgaagac ggccccatg 
      tgtgagctg ctttggtca gaccctcag actcagaat 
      ggacgcgcg cccagtaaa agaggagtt ggatgtcaa 
      tttggacca gatgttacg aagaggttt ttggaatta 
      aataaactg gattacatc attagaagt catgaagtg 
      aaaaataac ggatacgaa gtcgctcat gatggaaaa 
      tgtatcact gtgttttcc gctcctaac tattgtgat 
      accatgggt aatcaaggt gcttttatt acattaaaa 
      ggaaaagat atggagcct aagtttact acatatgaa 
      gcagtgccc catccaaac gtaaaacca atggcgtac 
      gcacactct ttactaagt ttaatgtgc tag
    mRNA sequence
    • >TC008963 RA
      caaatcctc tattttttt accttgata agtaatgaa 
      gggatttta aagactttt tcatccaat ttctaaaac 
      taaggtaca aaattaaat aaaaatgaa cacagaagt 
      taaagaaaa ctgtgttat tacccccga actagttga 
      agccggcga gcgctacaa agccgaagc gaacgagta 
      ctttaaaaa acaaaatta caacgccgc tatagaact 
      ttacactaa agcaatcga agcaaatcc gaatgttgc 
      gatctatta cgggaatcg cagttttgc ctacttgaa 
      aactgagtg cttcggcta cgctttagc cgatgcttc 
      gaaggcaat tgagctgga caaaggcta cgttaaggg 
      gttttacag gcgggcggc ggcccacat gagcttggg 
      caagtttaa ggaggccct gaaggacta cgaatatgt 
      gacaaaagt gagacctaa tgacaaaga cgccaagtc 
      caaatatac ggagtgtaa caaaatagt gaagaaatt 
      ggccttcga gaaggccat ttcggtcga agataccaa 
      aaagaatat cgccagtac cattaattt agatgcaat 
      gacaataga gaacgagta cacggggcc tgagcttga 
      ggatggaaa ggtgacttt aaaattcat gaaggattt 
      aatggaatt gtacaagaa tcaaggcaa gctgcacag 
      gaaatacgc ctacaaaat tttgttaga cgttaaggc 
      gtattttat gaaacagcc gtcactgat tgatgttgt 
      gattggtga tgaggataa gtttactgt ttgtggtga 
      tgtccatgg tcaattcta cgaccttat gaacatttt 
      taacttgaa cggtttacc gtctgaaac aaatcccta 
      cctcttcaa tggagactt tgttgacag aggttcatt 
      ttctgttga atgtatttt taccctttt tgggtttaa 
      actgttgta tccgaatca ctttttcat gtccagagg 
      aaatcacga aagcgctac aatgaacca aatgtatgg 
      tttcgatgg cgaggtcaa ggctaaata caccgctca 
      aatggctga acttttcac cgaggttta caactggtt 
      accactagc tcactgttt gaataaaag agttcttgt 
      gatgcatgg cggtctgtt ttcgactga cgatgttac 
      cttaagtga aattagtaa aattgaccg caacagaca 
      gccccccga agacggccc catgtgtga gctgctttg 
      gtcagaccc tcagactca gaatggacg cgcgcccag 
      taaaagagg agttggatg tcaatttgg accagatgt 
      tacgaagag gtttttgga attaaataa actggatta 
      catcattag aagtcatga agtgaaaaa taacggata 
      cgaagtcgc tcatgatgg aaaatgtat cactgtgtt 
      ttccgctcc taactattg tgataccat gggtaatca 
      aggtgcttt tattacatt aaaaggaaa agatatgga 
      gcctaagtt tactacata tgaagcagt gccccatcc 
      aaacgtaaa accaatggc gtacgcaca ctctttact 
      aagtttaat gtgctagta cctgccttt ttaatgtag 
      ttaacgtag gcatttcat cacttttat ttttttgta 
      ttaaaatga gtttttatt gtttctgtt atttaattt 
      tgtatcata atcgaaaag atacctcta gacttaaag 
      taaataaaa tatttattt attaccaag tttccttca 
      ttgtgactt atacaatag caataaaaa ttctactac 
      act
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY