Status
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Gene information
General information
TC003349 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_007418.3: 1794652..1811750
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
    TC003349
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02690

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (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: < 20
    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: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003349 RA
      MSGQHYCLR WNNYQSNMT SVFHQLLQN EAFVDVTLA 
      CNDLSLKAH KVVLSACSS YFQKLLLEN PCKHPTIIM 
      PQDVCYADL KFIIEFVYK GEIDVSQTE LQSLLRTAD 
      QLKIKGLCE PPDEKENSP LEPQYFPKN FSKVRKSSS 
      PKQFKPQDN NRRYKQKKP HLDNTSDKE DNGSLEAHS 
      SDEEHDMPV ALNDHKRKR AEPEQVKPL NMSSHGILT 
      GQTIFSQFG VDTDDFPPE PPAPSAIPV GHVDMQDHS 
      PTRTLLTNT IHRTDLSDS NVKYCDIKK EADIKFETL 
      RSYDQDSLL EMDSHMSGP DHSMDSHED DQSMHQMMV 
      TPELMGMMP GVSNRLELS SNEVPALKN NGHSDSLHH 
      TPRSHGGGP KTWTQEDMD MALDALRNH NMSLTKASA 
      TYGIPSTTL WQRAHRLGI DTPKKEGPT KSWTEENLN 
      SALEALRTG TISANKASK AYGIPSSTL YKIARREGI 
      RLAAPFNAA PTTWTPEDL EKALESIRS GQTSVQKAS 
      TEFGIPTGT LYGRCKREG IELSRSNPT PWSEDAMGE 
      ALEAVRLGH MSINQAAIH YNLPYSSLY GRFKRGIKY 
      ESDNIEPNS DSQSQMDGH SYGMDYANT HQQIQYQNQ 
      TNS
    CDS sequence
    • >TC003349 RA
      atgtctggc cagcattat tgcctgcga tggaacaat 
      tatcagagt aacatgact tccgttttt caccaactc 
      ctgcaaaat gaagccttc gtcgatgtc acgttagca 
      tgtaacgac ttatcacta aaagctcac aaggtggtg 
      ctgtctgct tgttcctca tatttccag aagctcctt 
      ttagagaat ccatgcaaa catccgacg atcataatg 
      ccgcaggat gtctgttac gccgacttg aaatttatc 
      atagaattc gtctacaaa ggagaaatc gacgtttcc 
      cagactgaa ttgcagtct cttctacgg acggccgac 
      cagctgaaa atcaaaggc ctgtgtgaa ccccccgac 
      gaaaaagag aattcacca ttagagcct cagtatttt 
      cccaaaaat ttttccaaa gttaggaaa tcatcatca 
      cctaagcaa ttcaagcct caagacaat aacagaaga 
      tacaaacag aagaaacca cacttagac aatacatcg 
      gataaggaa gataatggt agtttagaa gcacattct 
      tcagacgag gaacatgat atgccagta gctttaaat 
      gatcacaag agaaaaagg gcggagcct gaacaagta 
      aaaccactc aacatgagc agtcatggg attttgaca 
      ggacagacg atcttctct cagtttggg gtagacaca 
      gatgacttc cctccagag cctcctgcg ccttcggcg 
      atccccgtg ggtcacgtg gacatgcag gaccattca 
      ccaactcgt accctcctc accaacacc attcaccga 
      accgatttg tccgactcg aatgtcaaa tactgcgat 
      atcaaaaaa gaggccgat atcaaattt gaaacgttg 
      cgatcgtac gaccaagac tctttgctc gagatggat 
      tcacacatg tccggccct gaccattcc atggacagt 
      cacgaggac gaccagagt atgcaccag atgatggtc 
      actccagaa ctgatgggc atgatgccg ggagtttca 
      aatagatta gaattaagt agcaacgaa gtacctgca 
      ttaaaaaac aacgggcat tcagacagt ttgcatcac 
      acgccgagg tcgcacggc ggaggcccg aaaacttgg 
      actcaggaa gacatggac atggcctta gatgcttta 
      agaaaccac aatatgagc ctaacaaaa gcttcagca 
      acttacggt attccctcc acgacgctc tggcagcga 
      gcgcataga ctaggtata gatacgcca aagaaagaa 
      ggaccgaca aagtcatgg actgaagaa aacttgaac 
      agtgcactt gaggcgctg aggactgga acgatttcg 
      gccaataaa gcgagtaaa gcttacggt attcccagt 
      agcactttg tacaaaata gcccgccgt gaaggcatc 
      aggttagcc gccccattt aacgccgcc cccacgacg 
      tggacccct gaagatctc gaaaaggcc ttagaatcg 
      attagatca ggtcaaacg tccgtacaa aaagcctcg 
      actgagttc ggaattcct acgggaaca ctttatgga 
      cggtgtaaa cgcgaaggg attgaactt tcaaggtcg 
      aatccgacg ccgtggtcc gaggatgcc atgggggag 
      gcactggag gctgttagg ttggggcac atgtccata 
      aaccaggct gccatacac tacaatctg ccttattcg 
      tcgctgtat ggcagattc aaacgaggt atcaagtac 
      gaatcggac aacatcgag ccgaactcc gatagtcag 
      tcgcaaatg gacggccac agttatggg atggattat 
      gcgaatact catcaacaa attcaatac cagaatcag 
      acaaatagc tga
    mRNA sequence
    • >TC003349 RA
      ggacggtga aaagttgaa agagagagc gaagagatg 
      agaggagag aaacgaatt tgatccaca acaaaatag 
      tgagcctgt ctcttctaa tcgcacagt ccgttttcc 
      actgccgtc ttgattctg tttctttat catcgcgac 
      cgtgtttat tttgcatgt ttatttgtg tcagctgga 
      tatttacgg ctaaacaga aattatgtc tggccagca 
      ttattgcct gcgatggaa caattatca gagtaacat 
      gacttccgt ttttcacca actcctgca aaatgaagc 
      cttcgtcga tgtcacgtt agcatgtaa cgacttatc 
      actaaaagc tcacaaggt ggtgctgtc tgcttgttc 
      ctcatattt ccagaagct ccttttaga gaatccatg 
      caaacatcc gacgatcat aatgccgca ggatgtctg 
      ttacgccga cttgaaatt tatcataga attcgtcta 
      caaaggaga aatcgacgt ttcccagac tgaattgca 
      gtctcttct acggacggc cgaccagct gaaaatcaa 
      aggcctgtg tgaaccccc cgacgaaaa agagaattc 
      accattaga gcctcagta ttttcccaa aaatttttc 
      caaagttag gaaatcatc atcacctaa gcaattcaa 
      gcctcaaga caataacag aagatacaa acagaagaa 
      accacactt agacaatac atcggataa ggaagataa 
      tggtagttt agaagcaca ttcttcaga cgaggaaca 
      tgatatgcc agtagcttt aaatgatca caagagaaa 
      aagggcgga gcctgaaca agtaaaacc actcaacat 
      gagcagtca tgggatttt gacaggaca gacgatctt 
      ctctcagtt tggggtaga cacagatga cttccctcc 
      agagcctcc tgcgccttc ggcgatccc cgtgggtca 
      cgtggacat gcaggacca ttcaccaac tcgtaccct 
      cctcaccaa caccattca ccgaaccga tttgtccga 
      ctcgaatgt caaatactg cgatatcaa aaaagaggc 
      cgatatcaa atttgaaac gttgcgatc gtacgacca 
      agactcttt gctcgagat ggattcaca catgtccgg 
      ccctgacca ttccatgga cagtcacga ggacgacca 
      gagtatgca ccagatgat ggtcactcc agaactgat 
      gggcatgat gccgggagt ttcaaatag attagaatt 
      aagtagcaa cgaagtacc tgcattaaa aaacaacgg 
      gcattcaga cagtttgca tcacacgcc gaggtcgca 
      cggcggagg cccgaaaac ttggactca ggaagacat 
      ggacatggc cttagatgc tttaagaaa ccacaatat 
      gagcctaac aaaagcttc agcaactta cggtattcc 
      ctccacgac gctctggca gcgagcgca tagactagg 
      tatagatac gccaaagaa agaaggacc gacaaagtc 
      atggactga agaaaactt gaacagtgc acttgaggc 
      gctgaggac tggaacgat ttcggccaa taaagcgag 
      taaagctta cggtattcc cagtagcac tttgtacaa 
      aatagcccg ccgtgaagg catcaggtt agccgcccc 
      atttaacgc cgcccccac gacgtggac ccctgaaga 
      tctcgaaaa ggccttaga atcgattag atcaggtca 
      aacgtccgt acaaaaagc ctcgactga gttcggaat 
      tcctacggg aacacttta tggacggtg taaacgcga 
      agggattga actttcaag gtcgaatcc gacgccgtg 
      gtccgagga tgccatggg ggaggcact ggaggctgt 
      taggttggg gcacatgtc cataaacca ggctgccat 
      acactacaa tctgcctta ttcgtcgct gtatggcag 
      attcaaacg aggtatcaa gtacgaatc ggacaacat 
      cgagccgaa ctccgatag tcagtcgca aatggacgg 
      ccacagtta tgggatgga ttatgcgaa tactcatca 
      acaaattca ataccagaa tcagacaaa tagctgaga 
      catagtttt caactttga tagtttcta gaatagaga 
      agattctaa ttttttcaa gaaggtttt gtgatgatg 
      gaagtgcgt cagcttagt taattaaga gacttgagt 
      tttgaaatt accaactta ggctgttgt attatgata 
      cttaatttt taattttgt ttttaggat acgttgcct 
      ttccgtgag gcgatatta caaagtgca atattaaac 
      catttaata ccattagga ctagtgtac agatcttgt 
      atattcttc tagctaatt tactcaagc aatgttttt 
      gccagctat gggttcttg tatataatt tcaaccaac 
      ttttattgt tttatttac ctcagctgc actttttgc 
      tatttatgt acttagata tttttattt attatgttt 
      acgagctcc gagtgatcc gagtcagtt ttttgtttt 
      taataaaaa tcttaaaac ttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY