Status
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Gene information
General information
TC034678 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_007420.3: 603359..623002
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
    TC034678
    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_06699

    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)

    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
    larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: sometimes remaining head separat from everted thorax/abdomen
    head appendages position irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head appendages sometimes randomnot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    abdomen posterior rounded - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC034678 RA
      MRVILGLVF GILLSASTM AEIASELQV LQGNNQFTS 
      KMYKLLSQK KGNIIFSPI SMHAVLSMA YQGAQGSTA 
      EHFASTLQV PEAKIAAEG YSEVMKRLN SVQNVTLLM 
      ANKVFLKNG FTLLTDFET AVTKSFQSE VQLVDFAQN 
      EAAAKTIND WVEVQTREK IKDLIKKDD LNELTRLVL 
      VNAIYFKGN WKHKFRKEE TRTEPFYLN DVDKVEVQM 
      MHTKNKFNY KNDEALDAQ ILEMPYTNE NLSMVIILP 
      NQRNGIGEL EKKLENYNL SEITTNMWN TEVNVALPK 
      FKIEQTIDL EEALKKLGL GEIFDQDKA NFRGMIELK 
      PNENLYVSK VIQKAFIEV NEEGAEAAA ATGVHVMMK 
      RSLVFPEEF NADHPFIYA LKISKAKSG NVLFYGKVA 
      QLLPFSPTI CRQIFKAKR LIFFTVFCK YDYEGLHLF 
      LCNSSRIVF HCGPSIRIF VDSDIGKRK KSFICWKNH 
      KTFVKSKYK TYIKYSKAI HLNDKNLYN MLELVQQHV 
      FLI
    CDS sequence
    • >TC034678 RA
      atgagggta atacttgga ttagtcttc ggaatatta 
      ctgtccgct tcgacaatg gccgaaatc gcttccgaa 
      ttgcaagtg ttgcaaggc aacaaccag tttaccagc 
      aagatgtac aaactcttg tcccagaaa aagggaaac 
      atcattttt tcgcctatt agtatgcac gctgtgctt 
      tctatggcc taccaaggg gcgcaagga tccactgct 
      gaacatttc gcttcaaca cttcaagtt cctgaagcc 
      aaaatagct gcagaagga tacagtgaa gtcatgaag 
      cggcttaac tccgtccaa aacgtgact ttgctaatg 
      gctaataaa gttttcctg aagaatggg ttcacatta 
      ctcactgac tttgaaact gcagtcact aaaagtttc 
      cagtctgaa gtccaattg gttgatttt gcccaaaat 
      gaagccgct gctaagacc ataaatgat tgggttgag 
      gtgcaaaca cgtgaaaaa atcaaggat ttaatcaaa 
      aaagatgac ttgaacgaa ttaacgcgt cttgtgctc 
      gtgaatgcg atttatttc aaagggaac tggaagcac 
      aaatttcgt aaagaagaa acaaggact gaaccgttt 
      tatttgaat gatgtggat aaggttgaa gtgcaaatg 
      atgcacacg aagaataag tttaattat aaaaacgac 
      gaagcttta gatgcgcaa atccttgaa atgccttac 
      acgaatgaa aatctaagc atggttatt attctgcca 
      aatcagagg aacggaatc ggtgaactt gaaaagaag 
      ttagagaat tacaatttg tctgaaatc accacaaat 
      atgtggaat actgaagtc aatgtggct ttaccgaaa 
      tttaaaatt gaacagacg attgattta gaagaagct 
      ttaaaaaag ttgggactt ggcgaaatc tttgaccaa 
      gataaagct aactttaga ggcatgatt gaattaaaa 
      ccaaatgaa aacttgtat gttagcaaa gtcattcaa 
      aaggcattt attgaagtc aatgaggaa ggagccgaa 
      gctgctgca gctactggt gtgcatgtt atgatgaaa 
      cggtcctta gttttccct gaggaattt aacgctgat 
      catccattc atatatgct ctaaaaatt tcaaaagca 
      aaatctgga aatgtctta ttttatgga aaagtggca 
      caactacta ccatttagt cccactatt tgcaggcag 
      attttcaaa gccaaacgc ttaatattt ttcactgtt 
      ttttgcaag tatgattac gaaggcctt cacctattc 
      ctttgtaat tcgtcacga attgttttt cattgcgga 
      ccatccatt cgtattttt gttgactca gacatcggg 
      aagcgcaag aaatccttt atttgctgg aaaaatcac 
      aaaaccttt gtaaaatct aaatataag acgtatatt 
      aagtactca aaagcaatt catttgaat gataaaaat 
      ttgtataac atgctcgaa cttgttcaa cagcacgtt 
      ttcttaatt tag
    mRNA sequence
    • >TC034678 RA
      cgtttgcaa aacgaccca acaacttag tacttatta 
      gaagcacat ttttagtgt gatttgtgg taaatgtga 
      tacgttgta ttttccaga gtttgttgt tcaatttaa 
      cttaacaat tctcattaa ttattctac gttcttcgt 
      gttgtaaac tgataactt ttattgtgt ctttgattt 
      tatttttgt gacaaagga gaagccctc ctaacttaa 
      aatgagggt aatacttgg attagtctt cggaatatt 
      actgtccgc ttcgacaat ggccgaaat cgcttccga 
      attgcaagt gttgcaagg caacaacca gtttaccag 
      caagatgta caaactctt gtcccagaa aaagggaaa 
      catcatttt ttcgcctat tagtatgca cgctgtgct 
      ttctatggc ctaccaagg ggcgcaagg atccactgc 
      tgaacattt cgcttcaac acttcaagt tcctgaagc 
      caaaatagc tgcagaagg atacagtga agtcatgaa 
      gcggcttaa ctccgtcca aaacgtgac tttgctaat 
      ggctaataa agttttcct gaagaatgg gttcacatt 
      actcactga ctttgaaac tgcagtcac taaaagttt 
      ccagtctga agtccaatt ggttgattt tgcccaaaa 
      tgaagccgc tgctaagac cataaatga ttgggttga 
      ggtgcaaac acgtgaaaa aatcaagga tttaatcaa 
      aaaagatga cttgaacga attaacgcg tcttgtgct 
      cgtgaatgc gatttattt caaagggaa ctggaagca 
      caaatttcg taaagaaga aacaaggac tgaaccgtt 
      ttatttgaa tgatgtgga taaggttga agtgcaaat 
      gatgcacac gaagaataa gtttaatta taaaaacga 
      cgaagcttt agatgcgca aatccttga aatgcctta 
      cacgaatga aaatctaag catggttat tattctgcc 
      aaatcagag gaacggaat cggtgaact tgaaaagaa 
      gttagagaa ttacaattt gtctgaaat caccacaaa 
      tatgtggaa tactgaagt caatgtggc tttaccgaa 
      atttaaaat tgaacagac gattgattt agaagaagc 
      tttaaaaaa gttgggact tggcgaaat ctttgacca 
      agataaagc taactttag aggcatgat tgaattaaa 
      accaaatga aaacttgta tgttagcaa agtcattca 
      aaaggcatt tattgaagt caatgagga aggagccga 
      agctgctgc agctactgg tgtgcatgt tatgatgaa 
      acggtcctt agttttccc tgaggaatt taacgctga 
      tcatccatt catatatgc tctaaaaat ttcaaaagc 
      aaaatctgg aaatgtctt attttatgg aaaagtggc 
      acaactact accatttag tcccactat ttgcaggca 
      gattttcaa agccaaacg cttaatatt tttcactgt 
      tttttgcaa gtatgatta cgaaggcct tcacctatt 
      cctttgtaa ttcgtcacg aattgtttt tcattgcgg 
      accatccat tcgtatttt tgttgactc agacatcgg 
      gaagcgcaa gaaatcctt tatttgctg gaaaaatca 
      caaaacctt tgtaaaatc taaatataa gacgtatat 
      taagtactc aaaagcaat tcatttgaa tgataaaaa 
      tttgtataa catgctcga acttgttca acagcacgt 
      tttcttaat ttagaaact ttcgtagtc tttggaaat 
      caccaatta attgccact ttaccattt attagctaa 
      gcattattt gtaaattta attgtgaac acgtcagta 
      atttagctt tttgtgtcc actttaaac taatgcgta 
      tttttcatt ttcttattt ctgaaaaca gccgtcata 
      ttgaaaact cgatgcctt agaatacca cccaagcct 
      atgaccttc atagcggat catccgttt atctatttt 
      ctgttagaa aagaacaaa gcgttgttt tcaggacgt 
      gtgtctgag cctacaatt ctgtaatta ttgtttcgt 
      tcggtaaaa actataaaa ttaacattt ggtctgttt 
      tttgtaaat gttttgtcc gactaataa attgtacgt 
      gaattgtac ataactgga accatgttt tccaattac 
      gtgcaaatc acttttttg aaatttcct aaattaatt 
      ttcatttta tcatttagc ttcgatcat gatgatgcg 
      ttgttcact agtacccat acatcctcc accagtttt 
      taaagcgga tcatccatt catttacat tttggccga 
      aaaacgcaa caataaatt gtttgcggg tagagttac 
      taatccaaa tttgtattt ttgtactac tgattgtgt 
      attgtgtag cttaaaatg ttgtgtgca ctgatttta 
      tttcttcag tattaagtc taaggtatt aattgtatt 
      tgagtatta attactaat aaatcattt ttcaactt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY