Status
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Gene information
General information
TC000578 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_007417.3: 9470561..9473736
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
    TC000578
    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
    {{ goGene }}
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06621

    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


    remarks: eggs lost,
    Adult morphology
    remarks: eggs lost,
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    metathorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    mesothorax number increased - Penetrance (percentage of animals/eggs on slide): less than 30%

    metathorax potentially transformed - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs segment shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs segment shortened - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: eggs lost,
    remarks - cuticles: later than schedule,
     
    8 days later, due to lost eggs in day 9
     

    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
    • >TC000578 RA
      MVLKSKGAL KGQPPLPGE ASEGAKQSR GRGRPKSPS 
      RPKSPARPK SPARKSPSR TRKDSPPLQ SSTPKVSSP 
      KARSPMRRS PSRKSPTRA VKTTVTKSA ETYFSERVT 
      RPRRTRVDI DTDSDNPDG DVPHEKPQA AVRGRARRL 
      EVQVEKLNL NATDSRSSP FNLIKRATR NSQNREVER 
      VVHLKHFDS VAKKMGEFS DEDDSLMVR KSVSVDRGQ 
      EFRQITEFG GVWGALFYM FTTPLTIIA LLAACNENQ 
      CSFTQMPDL KKYSNLNTW FDLTSILGF FGYAIFLAI 
      LSVIPFGGK QITGLATKQ GKFQYIMNG LFSCFVFLM 
      IGIGLELRN IPICEFIVK HLFHLTIAS ILFGFILTF 
      YAFVRSFYV PFNALNAHV VGRNKIYGF FMGRELNPQ 
      AFGLLDLKM YVFRLALIG AALLDLTYL YTSLGLNTT 
      PSIKTVDLK SLSINPTLV ILVLIHLVY YLDALAHEA 
      TFVSSFEIQ YEGFGFMSG VGYLIYPIM MATVTKYVV 
      DYDVTLPVW KLTWVNLIF VLGYILFRG SNNQKDAFR 
      KNPYDPALS HLETIPTTK GKKLICSGF WGIVRHPNY 
      LGDILMNLS FIPFAAHVP PVVTSISII LFMIHRSVR 
      DNVRCKQKY GAAWDRYCS KVKYVLVPK VY
    CDS sequence
    • >TC000578 RA
      atggtactg aaatcgaaa ggggccttg aaaggccaa 
      ccgcctctt cccggggaa gcttcggaa ggtgccaag 
      cagtcgaga ggccgtggc agacccaaa agcccctcc 
      aggcccaag agcccggcg cgccctaaa agcccggcc 
      cgcaaaagc ccctcgagg acacgaaag gactcccct 
      ccgctgcag tcctccacg cccaaagtg tcctctccg 
      aaagcgcgc agccctatg aggagaagc ccaagccgg 
      aagtccccc acgagggcc gtcaaaacc actgttaca 
      aaaagcgca gagacttat ttctcggag agagtgact 
      agaccgcgc cggacgcgg gtcgatata gacacggac 
      tcggacaac cccgacggg gatgtgccc cacgagaag 
      ccccaagcc gccgtcagg ggacgcgcg aggcggctg 
      gaggtccaa gtcgagaag ttaaatctg aatgcaact 
      gactcaagg tcgagccct ttcaacctc atcaaacgc 
      gcgacgaga aattcgcaa aatcgtgaa gttgagaga 
      gtcgtccat ttgaagcat tttgatagt gtggcgaaa 
      aaaatgggc gagttttcg gatgaggac gacagcttg 
      atggtgagg aagtcggtc tcggttgat aggggacag 
      gagtttcga caaattacc gaatttggg ggcgtttgg 
      ggcgcgctt ttttacatg tttaccact cccttgacg 
      atcattgcg ttattagcg gcgtgcaac gagaatcag 
      tgctcgttc actcaaatg cccgatttg aagaaatat 
      tcgaattta aacacctgg tttgatttg acttcgatt 
      ttgggtttt ttcggttat gcgattttt ttggcgatt 
      ttatcggtt atcccgttc ggtgggaaa cagattacc 
      gggttggca acaaaacag ggaaaattt cagtacata 
      atgaacggt cttttctcg tgttttgtt tttttaatg 
      atcggaatt ggattagag ttgaggaat ataccgatt 
      tgtgaattt atagtcaaa catttattc catttgaca 
      atcgcgtcg attttattc ggttttatt ttaacgttt 
      tacgctttt gtgagaagt ttttatgtt ccgtttaat 
      gcgttaaat gctcatgtg gtcgggagg aataaaatt 
      tatggtttc tttatgggg cgggaattg aatccacaa 
      gcttttgga ctgcttgat ttgaaaatg tacgtcttt 
      aggttggct ttaattgga gctgcactg ctggatcta 
      acgtatctt tacacttcg ttgggtcta aacaccacg 
      ccatcaata aaaacggtt gatttaaaa tcgttatca 
      atcaaccca actttggtc attcttgta ctgattcat 
      ttggtgtat tatttggat gctttggca catgaagct 
      acctttgtt tcatcgttt gaaattcag tatgaagga 
      tttggattt atgtcagga gttggttat ttgatttat 
      ccaataatg atggctaca gtaacgaaa tacgttgtt 
      gattacgac gtcacattg ccagtctgg aaattgact 
      tgggtcaac cttattttt gtccttgga tatatttta 
      tttagagga agtaataat caaaaagat gcctttaga 
      aaaaatccc tacgatcct gcactttca catttggaa 
      acaattccg acgaccaaa ggcaagaaa cttatctgt 
      tccggtttt tggggcatc gtccgtcac ccgaattac 
      cttggggat attttaatg aatctgtct tttattccc 
      ttcgctgcc cacgtacca ccagttgtg acttcaatt 
      tcgattata ttatttatg attcatcgt tctgttaga 
      gataatgtt agatgtaaa cagaaatat ggggctgca 
      tgggacagg tactgtagc aaagtaaaa tacgtgcta 
      gtgccgaaa gtctactag
    mRNA sequence
    • >TC000578 RA
      actcttatt ttgactaac ttccaaacc ggccaatca 
      aatcgccac atttcgaac gcgttgttt gcgatcaag 
      tgagcgtct gtcgtgtta cggcgtctt ttggttgta 
      aacacaaga atatttttc gaattattt tggaaatac 
      cccaacaac accgccaca atttaagcg atggtactg 
      aaatcgaaa ggggccttg aaaggccaa ccgcctctt 
      cccggggaa gcttcggaa ggtgccaag cagtcgaga 
      ggccgtggc agacccaaa agcccctcc aggcccaag 
      agcccggcg cgccctaaa agcccggcc cgcaaaagc 
      ccctcgagg acacgaaag gactcccct ccgctgcag 
      tcctccacg cccaaagtg tcctctccg aaagcgcgc 
      agccctatg aggagaagc ccaagccgg aagtccccc 
      acgagggcc gtcaaaacc actgttaca aaaagcgca 
      gagacttat ttctcggag agagtgact agaccgcgc 
      cggacgcgg gtcgatata gacacggac tcggacaac 
      cccgacggg gatgtgccc cacgagaag ccccaagcc 
      gccgtcagg ggacgcgcg aggcggctg gaggtccaa 
      gtcgagaag ttaaatctg aatgcaact gactcaagg 
      tcgagccct ttcaacctc atcaaacgc gcgacgaga 
      aattcgcaa aatcgtgaa gttgagaga gtcgtccat 
      ttgaagcat tttgatagt gtggcgaaa aaaatgggc 
      gagttttcg gatgaggac gacagcttg atggtgagg 
      aagtcggtc tcggttgat aggggacag gagtttcga 
      caaattacc gaatttggg ggcgtttgg ggcgcgctt 
      ttttacatg tttaccact cccttgacg atcattgcg 
      ttattagcg gcgtgcaac gagaatcag tgctcgttc 
      actcaaatg cccgatttg aagaaatat tcgaattta 
      aacacctgg tttgatttg acttcgatt ttgggtttt 
      ttcggttat gcgattttt ttggcgatt ttatcggtt 
      atcccgttc ggtgggaaa cagattacc gggttggca 
      acaaaacag ggaaaattt cagtacata atgaacggt 
      cttttctcg tgttttgtt tttttaatg atcggaatt 
      ggattagag ttgaggaat ataccgatt tgtgaattt 
      atagtcaaa catttattc catttgaca atcgcgtcg 
      attttattc ggttttatt ttaacgttt tacgctttt 
      gtgagaagt ttttatgtt ccgtttaat gcgttaaat 
      gctcatgtg gtcgggagg aataaaatt tatggtttc 
      tttatgggg cgggaattg aatccacaa gcttttgga 
      ctgcttgat ttgaaaatg tacgtcttt aggttggct 
      ttaattgga gctgcactg ctggatcta acgtatctt 
      tacacttcg ttgggtcta aacaccacg ccatcaata 
      aaaacggtt gatttaaaa tcgttatca atcaaccca 
      actttggtc attcttgta ctgattcat ttggtgtat 
      tatttggat gctttggca catgaagct acctttgtt 
      tcatcgttt gaaattcag tatgaagga tttggattt 
      atgtcagga gttggttat ttgatttat ccaataatg 
      atggctaca gtaacgaaa tacgttgtt gattacgac 
      gtcacattg ccagtctgg aaattgact tgggtcaac 
      cttattttt gtccttgga tatatttta tttagagga 
      agtaataat caaaaagat gcctttaga aaaaatccc 
      tacgatcct gcactttca catttggaa acaattccg 
      acgaccaaa ggcaagaaa cttatctgt tccggtttt 
      tggggcatc gtccgtcac ccgaattac cttggggat 
      attttaatg aatctgtct tttattccc ttcgctgcc 
      cacgtacca ccagttgtg acttcaatt tcgattata 
      ttatttatg attcatcgt tctgttaga gataatgtt 
      agatgtaaa cagaaatat ggggctgca tgggacagg 
      tactgtagc aaagtaaaa tacgtgcta gtgccgaaa 
      gtctactag ttttaaaaa aagtactgt taattgcct 
      gaatgttta tgtacatac ttttaacac tacacaaag 
      gtgttcaga cttatcagt aaattttgt acaatctga 
      acacgacta ttttttaga tgtacccaa tcagagtgt 
      atgtgtaat atttacatg ttattttta tgcaaagtt 
      gctcaacaa tctttttgc ataaaaatc tgattgggt 
      ttgaagaaa ttgaaaatt tcttgatca cgtttagaa 
      ttaagttat cgtaggtgt aggtcataa tttttattt 
      tattggtgt gagtttata agttttttg ccatacttt 
      accaatgaa atgacaaag tacaaactg aacacattg 
      taccaaact tatgttata gtcacagtg gggtttttg 
      ctctctcat acaacaatt atattttca tttttcgtg 
      atctcaact agattgtgc aatgttttt gacaaaaag 
      gaataagta tggaaataa aaaaaggag gttcaaaac 
      gtaactaaa atcgaaaat tatagtatt tttgtaatt 
      acagtatgg agatgcgcg gtttataat gcgacttgt 
      atgaatttt atcaatttt tagataact taaattttt 
      ataacaatg aaacatatt agcccaaat ttttaatac 
      agtggtgta taataaggg ggccccatg gcgtccttt 
      tttatgtgt tttattttc catacactt aactgacat 
      attttaaat aaataggaa attagtatt taaaatttt 
      aaattttat gattttttt gaaagtgcc ctagtagta 
      aaagaacag attgatttc tacttatag attgtttta 
      gaataaatt tttttaaag tga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY