Status
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Gene information
General information
TC004579 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_007416.3: 7400504..7405454
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
    TC004579
    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_00725

    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: 60.0% (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: 4 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    labium not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    remarks: animals lost, adult lethality immediately after eclosion - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    Pupal morphology
    remarks: animals lost,
    Adult morphology
    remarks: animals lost,
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004579 RA
      MSLATETTR LLSDQTQPQ YAFDTSLVR ERKKRIKQF 
      QCCLCVIFV CCLVVAFLI AAVWGINRA ENSFTNVTN 
      TSSPSDTLT TLLAISWPR PDKPMNTSY CNNQSEWSQ 
      ALAAGLKAL NTKHQIEKN VTEMTTDSP SYKHQKVFL 
      DSNKTQALA NLGYLRESA RRFFPNNGS TICNKAEPC 
      PVPQKCTEF AKFRTFDGT CNNLERPNL GAAFQPFRR 
      ALPPDYADG VSSPRGAKT GALPSARTV SLEVHRPFY 
      KNDDKFSVM LAVWGQFLD HDMTATAPS RGPNGSTIA 
      CCGQKVTHP ECFPVKLDR FDPLSEFNV TCMEFVRSA 
      NAATCCLGP REQMNQVTA FIDGSVIYG VEEKTVGAL 
      RTMSGGELE MFVTSDNRT LLPVSKDLT DGCNRLEES 
      RKGRYCFLT GDGRANENL HLTSMHLIW ARQHNSIAK 
      QLAKLNPDW ADERLFQES RKIIGAQMQ HICYREFLP 
      ILLGRGLME KSGLYPRTS GYFTEYNSA VDPSIANNF 
      ATAAFRFAH SIIPGLMKF LAKDSSSPE FVQLHKMLF 
      DPFRLYQAG GLDRALRGA MDTPIQAND PYFSSELKD 
      KLFEDAANE TIRAYGLDL VSLNIQRGR DHGLVGYNS 
      WREHCGLRR VSTFQQLQG DFDDDSLRN IQAIYRDVD 
      DVDLYTGAL SEKPLNGSI LGPTLTCLI HDQFVRVKY 
      GDRFWYENP HWFTLDQLA EIRKTSLAR IICDNSDEV 
      DEVQPLVME KIRSDNKVV PCSALPAPQ WGPWKEALH 
      RVRTSADTL SVESITN
    CDS sequence
    • >TC004579 RA
      atgtctctc gcgactgaa acgacaaga ttactttcg 
      gaccaaacg caaccgcaa tatgcgttt gataccagc 
      ctcgtacgg gagcgtaaa aaacgaatt aaacaattc 
      caatgttgc ttatgcgtg atttttgtt tgttgtctc 
      gtggtggca tttttgatt gccgctgtt tggggcata 
      aacagggcg gaaaacagc ttcacaaac gtgactaat 
      actagttcc ccctcggac acactcacg actctactt 
      gcaatttcg tggccccgt cccgacaaa cccatgaat 
      acgtcctat tgtaacaac cagagtgaa tggtcacag 
      gcccttgcc gcgggccta aaggcccta aacaccaaa 
      caccaaatc gagaaaaat gtcacagaa atgaccacc 
      gacagcccc agctacaaa caccagaag gtgttccta 
      gactcgaat aaaactcaa gctttggcc aacttgggc 
      tacttgcga gaatcagca aggcggttt ttccccaac 
      aacgggagc acaatttgc aataaggct gaaccgtgt 
      cctgtgccc caaaaatgc accgaattt gcgaaattt 
      cgcacgttt gatggcact tgtaacaat ctggagcgc 
      cccaatttg ggggctgcg ttccagcct tttcgccgc 
      gcgctcccg ccggactac gccgacggg gttagcagc 
      ccccggggg gccaaaacc ggggcgctt ccatcggct 
      cgcaccgtc agcttggag gtccatcgg ccgttttac 
      aaaaacgac gataagttt agcgtaatg ttggccgtt 
      tgggggcag tttctggat cacgatatg acggcgaca 
      gcccccagt cggggcccc aacggctcc acgatcgcc 
      tgttgtggc caaaaagtc acacatccg gagtgcttt 
      cccgtcaag ttggaccgc tttgaccct ttatccgaa 
      tttaatgtc acttgtatg gaatttgtg cggtcggca 
      aatgccgcc acttgttgt ctggggccc agggaacag 
      atgaaccaa gtgacggcg tttatagac gggtcggtt 
      atttacggg gtggaggaa aagacagtt ggggcgctc 
      cggacgatg tcagggggt gaactcgaa atgtttgta 
      acttcggat aatcggacg ttgttaccg gtttcgaaa 
      gacttaacc gatggttgt aaccggttg gaggagagt 
      cggaaaggg aggtattgt ttcctaaca ggtgatgga 
      agggccaac gaaaatttg cacttgact agtatgcac 
      ttaatttgg gcaagacaa cacaactca atcgccaaa 
      caattggca aaattgaac cctgattgg gctgacgag 
      cgcttgttt caagaaagt cgcaagata atcggggcg 
      cagatgcag cacatttgc tacagagag ttcctcccg 
      attctttta ggccggggt ttgatggaa aaatcgggc 
      ttgtaccca cgaacttcc ggttatttc actgaatac 
      aactcagcc gtcgaccca tctatagcc aacaatttt 
      gcaacagca gcattccgc ttcgcccac tccataatc 
      ccgggttta atgaaattt ttggcaaag gactcgtct 
      agtcccgag ttcgttcaa ttgcataaa atgctgttc 
      gatccgttc aggttgtac caggccggg gggctcgac 
      cgggccttg aggggcgcc atggacacc cccatccaa 
      gccaacgac ccctacttc agcagcgaa ctgaaagac 
      aagctcttt gaggacgct gcgaacgag acaattcgc 
      gcgtatggt ttagatttg gtctctttg aatatacaa 
      cgaggccgc gaccatgga ttagttggc tataacagc 
      tggcgagag cattgcgga ttaaggaga gtctctacg 
      tttcagcaa cttcagggg gactttgac gatgattca 
      ctcagaaac attcaggct atctataga gacgtggac 
      gacgtggac ttgtacacg ggggctctg agcgagaag 
      cccctcaac gggagcatt ctgggcccg actctgacg 
      tgtttgatc cacgaccag ttcgtgcga gtgaaatat 
      ggggaccgt ttttggtac gagaacccc cattggttc 
      actcttgac caacttgcc gaaattcga aaaacgagt 
      cttgcccgg attatttgt gacaattcg gatgaagtt 
      gacgaagtg cagcctcta gtgatggag aaaatccga 
      agcgataat aaagtcgtc ccttgtagc gcccttccc 
      gctcctcag tggggcccc tggaaggaa gccctccac 
      cgcgtccgc acgtccgct gatacactt tcagtggaa 
      tcaatcacg aattag
    mRNA sequence
    • >TC004579 RA
      ctgattttc tattccaat agttagtgt gtttacaac 
      tgcgtcagt gttggtcgg tcaaaaatt cttttcagg 
      attttggga acatgtctc tcgcgactg aaacgacaa 
      gattacttt cggaccaaa cgcaaccgc aatatgcgt 
      ttgatacca gcctcgtac gggagcgta aaaaacgaa 
      ttaaacaat tccaatgtt gcttatgcg tgatttttg 
      tttgttgtc tcgtggtgg catttttga ttgccgctg 
      tttggggca taaacaggg cggaaaaca gcttcacaa 
      acgtgacta atactagtt ccccctcgg acacactca 
      cgactctac ttgcaattt cgtggcccc gtcccgaca 
      aacccatga atacgtcct attgtaaca accagagtg 
      aatggtcac aggcccttg ccgcgggcc taaaggccc 
      taaacacca aacaccaaa tcgagaaaa atgtcacag 
      aaatgacca ccgacagcc ccagctaca aacaccaga 
      aggtgttcc tagactcga ataaaactc aagctttgg 
      ccaacttgg gctacttgc gagaatcag caaggcggt 
      ttttcccca acaacggga gcacaattt gcaataagg 
      ctgaaccgt gtcctgtgc cccaaaaat gcaccgaat 
      ttgcgaaat ttcgcacgt ttgatggca cttgtaaca 
      atctggagc gccccaatt tgggggctg cgttccagc 
      cttttcgcc gcgcgctcc cgccggact acgccgacg 
      gggttagca gcccccggg gggccaaaa ccggggcgc 
      ttccatcgg ctcgcaccg tcagcttgg aggtccatc 
      ggccgtttt acaaaaacg acgataagt ttagcgtaa 
      tgttggccg tttgggggc agtttctgg atcacgata 
      tgacggcga cagccccca gtcggggcc ccaacggct 
      ccacgatcg cctgttgtg gccaaaaag tcacacatc 
      cggagtgct ttcccgtca agttggacc gctttgacc 
      ctttatccg aatttaatg tcacttgta tggaatttg 
      tgcggtcgg caaatgccg ccacttgtt gtctggggc 
      ccagggaac agatgaacc aagtgacgg cgtttatag 
      acgggtcgg ttatttacg gggtggagg aaaagacag 
      ttggggcgc tccggacga tgtcagggg gtgaactcg 
      aaatgtttg taacttcgg ataatcgga cgttgttac 
      cggtttcga aagacttaa ccgatggtt gtaaccggt 
      tggaggaga gtcggaaag ggaggtatt gtttcctaa 
      caggtgatg gaagggcca acgaaaatt tgcacttga 
      ctagtatgc acttaattt gggcaagac aacacaact 
      caatcgcca aacaattgg caaaattga accctgatt 
      gggctgacg agcgcttgt ttcaagaaa gtcgcaaga 
      taatcgggg cgcagatgc agcacattt gctacagag 
      agttcctcc cgattcttt taggccggg gtttgatgg 
      aaaaatcgg gcttgtacc cacgaactt ccggttatt 
      tcactgaat acaactcag ccgtcgacc catctatag 
      ccaacaatt ttgcaacag cagcattcc gcttcgccc 
      actccataa tcccgggtt taatgaaat ttttggcaa 
      aggactcgt ctagtcccg agttcgttc aattgcata 
      aaatgctgt tcgatccgt tcaggttgt accaggccg 
      gggggctcg accgggcct tgaggggcg ccatggaca 
      cccccatcc aagccaacg acccctact tcagcagcg 
      aactgaaag acaagctct ttgaggacg ctgcgaacg 
      agacaattc gcgcgtatg gtttagatt tggtctctt 
      tgaatatac aacgaggcc gcgaccatg gattagttg 
      gctataaca gctggcgag agcattgcg gattaagga 
      gagtctcta cgtttcagc aacttcagg gggactttg 
      acgatgatt cactcagaa acattcagg ctatctata 
      gagacgtgg acgacgtgg acttgtaca cgggggctc 
      tgagcgaga agcccctca acgggagca ttctgggcc 
      cgactctga cgtgtttga tccacgacc agttcgtgc 
      gagtgaaat atggggacc gtttttggt acgagaacc 
      cccattggt tcactcttg accaacttg ccgaaattc 
      gaaaaacga gtcttgccc ggattattt gtgacaatt 
      cggatgaag ttgacgaag tgcagcctc tagtgatgg 
      agaaaatcc gaagcgata ataaagtcg tcccttgta 
      gcgcccttc ccgctcctc agtggggcc cctggaagg 
      aagccctcc accgcgtcc gcacgtccg ctgatacac 
      tttcagtgg aatcaatca cgaattagt ttgcacaat 
      aaatgcacc aacttttg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY