Status
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Gene information
General information
TC005304 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_007423.3: 14576591..14579143
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
    TC005304
    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_09306

    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: 3 (3 dpi)
    Days post injection


    Fertility
    previtellogenic egg chamber number decreased - Number of animals showing the phenotype: 2

    vitellarium size decreased - Number of animals showing the phenotype: 2

    vitellogenic egg chamber late deposition not present - Number of animals showing the phenotype: 2

    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
    • >TC005304 RA
      MQAIMFDFN ACMYERPPL VEETLPNQI EMCRQRLIL 
      YKTLQSNDS IFINALKRV LNVKKCSLG HLLQVRDSP 
      EIIDARKCD YISHWILRV AYSRTDHDS RAFFVRNEL 
      RWFKIRFNN MSSHARALF INKYQLTVA IEQEKKHFR 
      LTGSWYKIY FTEVVELVK LRMYPMNDG YIFIPEHKV 
      VFWFLQRLE KDLWNSFHH LRKIHPVCI DERLKTIIS 
      LLNLVRPNE YNFNFGKLE LEQLREKWK NFPLCMKIQ 
      YENLQKNHH LKHFSRFQL GLFLKGIGL SLTNALELW 
      KSEFIKIMS EEQFIKEHV YYFKHLYGV VGAKINYRP 
      YNCEKIQSQ GVGHGQIHG CPFKHSDNH MLAARLAKD 
      SVSNDEIEF ILALKKEKD YNKACTRYL ECVHSCQIG 
      EDTVINHPN DYFEKACQA DVVDIEDLF ASENY
    CDS sequence
    • >TC005304 RA
      atgcaagca ataatgttt gatttcaat gcctgtatg 
      tacgaacgt cctcctcta gtggaggag actctcccc 
      aatcaaatt gaaatgtgc cgtcaaaga ctcatctta 
      tacaaaacg ttacaaagt aatgattcc attttcata 
      aatgcactc aaaagagta ttaaacgtg aaaaagtgc 
      tcactgggg catttatta caagtcagg gattccccc 
      gaaattatt gatgctcgc aaatgtgat tatatttca 
      cactggatt ttacgtgta gcttatagt cggacagac 
      cacgacagt agagctttt ttcgtaaga aatgagctt 
      cgctggttc aaaatacgc tttaataac atgtcgagt 
      catgctcgt gcattattt atcaacaaa tatcaacta 
      acagtagcc atcgaacag gaaaaaaaa cattttcga 
      ctaaccgga tcttggtat aagatctac tttactgaa 
      gtcgtggag ttggtaaaa ttacgcatg taccccatg 
      aatgatggt tacattttt attccggaa cataaagtc 
      gttttttgg ttcctccaa cggttggag aaagacttg 
      tggaattca ttccaccat ttgaggaaa attcatcct 
      gtttgtatt gacgaacgt ttgaaaaca atcatctcc 
      ctattaaat ctagtaaga ccaaatgaa tataatttc 
      aattttgga aaactcgaa ctcgaacaa ttgcgggaa 
      aaatggaaa aattttcct ctatgtatg aaaatacag 
      tatgaaaat ttgcaaaag aaccaccac ttgaaacat 
      ttctcacgc ttccagttg ggtttgttt ctaaaaggc 
      attggtttg tcgcttaca aatgctctc gaattgtgg 
      aaaagcgaa tttatcaaa attatgtct gaggaacaa 
      tttataaaa gaacacgtt tattatttc aaacacttg 
      tatggagtg gttggggca aaaatcaac tataggccc 
      tacaattgt gaaaaaata caaagtcaa ggagtggga 
      catggacaa attcatgga tgtcccttt aaacattcg 
      gacaatcac atgttagct gcgcgactt gcaaaggac 
      agcgtttcc aatgacgag attgaattt attttggct 
      ttgaaaaaa gaaaaagac tacaacaaa gcttgtact 
      agatacctt gaatgtgtt catagttgt caaataggg 
      gaagacact gtaataaat catccaaat gattatttt 
      gaaaaggct tgccaagca gatgttgtg gacattgaa 
      gatttgttt gcgtcagaa aattattaa
    mRNA sequence
    • >TC005304 RA
      ctatttcct tcttgaatt tcttgatcc aaataatat 
      gcaaccagc tatccatgt tatttgagg ttatgttat 
      ttcaaaaaa agtcaatat ttttctctt atatgttgc 
      tataaaaaa tgcaagcaa taatgtttg atttcaatg 
      cctgtatgt acgaacgtc ctcctctag tggaggaga 
      ctctcccca atcaaattg aaatgtgcc gtcaaagac 
      tcatcttat acaaaacgt tacaaagta atgattcca 
      ttttcataa atgcactca aaagagtat taaacgtga 
      aaaagtgct cactggggc atttattac aagtcaggg 
      attcccccg aaattattg atgctcgca aatgtgatt 
      atatttcac actggattt tacgtgtag cttatagtc 
      ggacagacc acgacagta gagcttttt tcgtaagaa 
      atgagcttc gctggttca aaatacgct ttaataaca 
      tgtcgagtc atgctcgtg cattattta tcaacaaat 
      atcaactaa cagtagcca tcgaacagg aaaaaaaac 
      attttcgac taaccggat cttggtata agatctact 
      ttactgaag tcgtggagt tggtaaaat tacgcatgt 
      accccatga atgatggtt acattttta ttccggaac 
      ataaagtcg ttttttggt tcctccaac ggttggaga 
      aagacttgt ggaattcat tccaccatt tgaggaaaa 
      ttcatcctg tttgtattg acgaacgtt tgaaaacaa 
      tcatctccc tattaaatc tagtaagac caaatgaat 
      ataatttca attttggaa aactcgaac tcgaacaat 
      tgcgggaaa aatggaaaa attttcctc tatgtatga 
      aaatacagt atgaaaatt tgcaaaaga accaccact 
      tgaaacatt tctcacgct tccagttgg gtttgtttc 
      taaaaggca ttggtttgt cgcttacaa atgctctcg 
      aattgtgga aaagcgaat ttatcaaaa ttatgtctg 
      aggaacaat ttataaaag aacacgttt attatttca 
      aacacttgt atggagtgg ttggggcaa aaatcaact 
      ataggccct acaattgtg aaaaaatac aaagtcaag 
      gagtgggac atggacaaa ttcatggat gtcccttta 
      aacattcgg acaatcaca tgttagctg cgcgacttg 
      caaaggaca gcgtttcca atgacgaga ttgaattta 
      ttttggctt tgaaaaaag aaaaagact acaacaaag 
      cttgtacta gataccttg aatgtgttc atagttgtc 
      aaatagggg aagacactg taataaatc atccaaatg 
      attattttg aaaaggctt gccaagcag atgttgtgg 
      acattgaag atttgtttg cgtcagaaa attattaag 
      ttttgttaa attgtctta agaaataaa tttgagttt 
      tgtttattg aataagtag ataataata aggtaaaag 
      ttgcacatt tccgttgtt ggttgtgtg tttgctggc 
      gatgtgttg ctgcaactc gttctccac tccggtttt 
      aaagtcaca atgggagca ctgatgtcg acactcctt 
      ttgcgtatc aggttcact tttcctatg ttgcgccaa 
      atcggattt ttgcgtcgt cctgtaggt ggtgcattt 
      ttcaatatt ttgacacgg ggcatgttt agtcttgac 
      atgtctttt caacgaatt ttccatcgt tgttttaaa 
      cggacagtg ttcgcagcc aaaccaacg ctcctcgtc 
      ttgatgttt caaagccat gtgttcatt taacgacgt 
      tttgtccac tgttacaaa tggacactt cttgcattt 
      gtgccattg gaccacctc tacccgttg ttgcaaggg 
      ttttttctt cagtttgtt gggttgctt aacactagt 
      acagtgttt ggttttaat gtgacgttg taaaataat 
      atttaattt tgtttgaaa cagacattg attacactt 
      aagccatct gatttggcg aggttttgg ggggcgctt 
      aaatagctt ttcggattc agtagaaag tttaataca 
      cggcccaca ttttgtatg acggagact atgtagtga 
      tgagtatgt ttgaaatgc acaactctt acatacgta 
      attttttag cacgtaagg acactgggg cgacctttt 
      ctttgattt gttgctgtg agtttcacg aacatgctt 
      gttgagaag gacgagaag tgatgtttt aaatttaca 
      caggttaca agtgtattt atgtaaaat tgcactttc 
      acaattaaa tttttttaa aatttcgcc atttctcat 
      catttttat tttacttga aatgatcac aacataacc 
      ttattagat aaattaaaa tgacagccg cgccaacat 
      ggatatgtt ccaaaacta gacatttgc caaaatttt 
      ttttaaacc attataata ataaataat agatttgta 
      cagaaattt tcacaaaaa ctcagcata aaaataaag 
      taaaacgac aaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY