Status
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Gene information
General information
TC005374 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: 13953247..13955753
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
    TC005374
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07583

    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: 0.0% (includes death as pupa, adult)

    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: % (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
    • >TC005374 RA
      MKLLVAFLA LCAFASSYP QQQISDKGL LQKQKDVLR 
      LFRYVNQPS YYKDFNEIA QNFDLEQNY NNYANPEVP 
      KYYYQIYQY GLLPRGQVF SVFYQEHLQ QAIALYKLF 
      YYAKDYQTF YNTAVWARQ YINEGVYLY SLSVAIVHR 
      NDTYGVVLP PIYETYPYY FYNNEVIQQ AQRYKQQYD 
      GKSYTINAN YSGYYLNLN PEQSLSYFT EDVGINSFY 
      YYYNVYYPF WLGGQDFNY QNDLRGELF YYVYQQILA 
      RYYLERLSN GFGEIPYFN YEVPFENGY YPSLQYPNG 
      LFFPQRPNF ANLYEYFYN YGQKYGTNK YAYSYTFVQ 
      DYERRIREA IDQGYVYTP EGQKINLYT EQGLNILGN 
      LIESNPDSP NYRYYGALQ VYGRHLLGY SYQPLNQYQ 
      VAPSALEHF ETSLRDPAF YQFYKRVLL YFQQYQNNL 
      PAYTAQDLS YQGVEVTNV QFDRLVTYF DYFYTDLSN 
      AVYVTPEEF NGERVQIRA RQYRLNHKA FTYKIYVKS 
      SQAQKASVR VYLGPKYDE YGRYLNISQ NRLNFVQFD 
      HFVYQLQAG ENTIERNSR QSYFYQNDR TSYQELYQK 
      VLGALDGNG QFSVEPNEA YFGFPRRFL LPKGNYGGY 
      EYQFYVIVS PYVPYQGQQ TDSKYYYPR VGSGAQYLD 
      NYPLGYPFD RPVHYDQVY NNIPNSFVY SAKIYHRDV 
      EDINASSAS SQ
    CDS sequence
    • >TC005374 RA
      atgaaactc ctagtggct tttctggca ctgtgtgcc 
      tttgcatcg tcatacccc caacagcaa ataagcgat 
      aaggggctc ctccagaag caaaaggac gtccttaga 
      ctgttcagg tacgttaac cagcccagc tactataaa 
      gatttcaac gaaattgcc caaaatttt gacttggaa 
      caaaactac aacaactat gctaacccg gaagtacca 
      aagtactac taccaaatc taccagtat ggcttgctt 
      ccaaggggc caggtcttc tcagttttc taccaggag 
      catttgcaa caagctatc gccctttat aagcttttt 
      tactacgct aaggactac caaacgttc tacaatacg 
      gccgtttgg gcgcgtcag tacatcaac gaaggggtt 
      tatttgtac tccttatct gtggcaata gtgcaccga 
      aacgacacc tatggggtt gttttgccc ccaatttac 
      gaaacctac ccgtactac ttttacaac aacgaggtg 
      atccaacaa gctcaaagg tacaagcaa cagtacgat 
      ggtaaaagt tataccatc aatgccaac tattcgggg 
      tactacctc aacttgaac ccggaacag tccttgtcg 
      tactttacc gaagatgtg gggatcaac tccttctac 
      tactactat aatgtttac tatcccttc tggttgggt 
      ggtcaagac ttcaactac cagaacgac ctaagaggc 
      gagttgttc tactatgtg taccaacaa atcctagcc 
      cggtactac cttgaacgt ttgtccaac ggtttcggg 
      gaaatcccc tatttcaac tatgaagta ccgttcgaa 
      aatgggtac tacccctcg ttgcagtac cccaacggt 
      ttgttcttc ccccaaaga ccgaacttt gccaacctg 
      tacgagtac ttctacaac tatgggcaa aagtacggt 
      accaacaag tacgcctac agttacacc ttcgtccag 
      gattatgaa cgcaggatt cgggaggcg attgaccaa 
      ggctacgtt tacacacct gaaggccag aaaatcaac 
      ttgtacaca gagcaaggg ttgaatatt ctgggcaat 
      ttgattgag tctaaccca gattcgccc aactaccgg 
      tactacggt gccttgcaa gtctatggt agacacctc 
      ctgggctat tcgtaccaa cccttgaac cagtaccaa 
      gtggcacct tctgccctt gaacatttc gaaacgtcg 
      ctccgtgac ccagccttc taccagttc tataaaagg 
      gtacttttg tacttccag cagtaccag aacaactta 
      ccggcctac acggcccaa gacttgtcg taccaaggt 
      gtggaagtg accaatgtc cagtttgac cgacttgtt 
      acctacttt gactatttc tacactgat ttgagtaac 
      gcagtttac gtcactccg gaggagttt aacggggaa 
      cgagtccaa atccgggcc aggcagtac cgtctcaac 
      cacaaagct ttcacttac aagatctac gttaagtcg 
      agtcaagcc cagaaagcc agtgttagg gtttatttg 
      ggcccgaag tacgacgaa tatggacgg tacctcaat 
      ataagccaa aataggcta aactttgta cagtttgat 
      catttcgtg taccaactc caagctggg gaaaacaca 
      atcgagcgc aattcccgc caaagttat ttctaccaa 
      aacgaccga actagttac caggagttg taccaaaag 
      gttttgggg gcgctggat ggcaatggg cagtttagt 
      gtcgagcca aatgaggcc tattttgga tttccgcgc 
      aggttcctc ttgcccaag ggtaattat ggcggctac 
      gagtaccag ttttacgtc attgtgagt ccatacgtg 
      ccttaccaa ggccaacaa accgactcg aaatactac 
      tacccaagg gtgggaagt ggtgcccag tacctggac 
      aactacccc ttgggttac cccttcgat cgtccggtt 
      cactacgac caagtgtac aacaacatc cccaattcg 
      ttcgtctac agtgcgaaa atttaccac cgtgatgtg 
      gaagatatc aatgcatct agtgcgtcc agtcaatag
    mRNA sequence
    • >TC005374 RA
      ccaaacaca acgatgaaa ctcctagtg gcttttctg 
      gcactgtgt gcctttgca tcgtcatac ccccaacag 
      caaataagc gataagggg ctcctccag aagcaaaag 
      gacgtcctt agactgttc aggtacgtt aaccagccc 
      agctactat aaagatttc aacgaaatt gcccaaaat 
      tttgacttg gaacaaaac tacaacaac tatgctaac 
      ccggaagta ccaaagtac tactaccaa atctaccag 
      tatggcttg cttccaagg ggccaggtc ttctcagtt 
      ttctaccag gagcatttg caacaagct atcgccctt 
      tataagctt ttttactac gctaaggac taccaaacg 
      ttctacaat acggccgtt tgggcgcgt cagtacatc 
      aacgaaggg gtttatttg tactcctta tctgtggca 
      atagtgcac cgaaacgac acctatggg gttgttttg 
      cccccaatt tacgaaacc tacccgtac tacttttac 
      aacaacgag gtgatccaa caagctcaa aggtacaag 
      caacagtac gatggtaaa agttatacc atcaatgcc 
      aactattcg gggtactac ctcaacttg aacccggaa 
      cagtccttg tcgtacttt accgaagat gtggggatc 
      aactccttc tactactac tataatgtt tactatccc 
      ttctggttg ggtggtcaa gacttcaac taccagaac 
      gacctaaga ggcgagttg ttctactat gtgtaccaa 
      caaatccta gcccggtac taccttgaa cgtttgtcc 
      aacggtttc ggggaaatc ccctatttc aactatgaa 
      gtaccgttc gaaaatggg tactacccc tcgttgcag 
      taccccaac ggtttgttc ttcccccaa agaccgaac 
      tttgccaac ctgtacgag tacttctac aactatggg 
      caaaagtac ggtaccaac aagtacgcc tacagttac 
      accttcgtc caggattat gaacgcagg attcgggag 
      gcgattgac caaggctac gtttacaca cctgaaggc 
      cagaaaatc aacttgtac acagagcaa gggttgaat 
      attctgggc aatttgatt gagtctaac ccagattcg 
      cccaactac cggtactac ggtgccttg caagtctat 
      ggtagacac ctcctgggc tattcgtac caacccttg 
      aaccagtac caagtggca ccttctgcc cttgaacat 
      ttcgaaacg tcgctccgt gacccagcc ttctaccag 
      ttctataaa agggtactt ttgtacttc cagcagtac 
      cagaacaac ttaccggcc tacacggcc caagacttg 
      tcgtaccaa ggtgtggaa gtgaccaat gtccagttt 
      gaccgactt gttacctac tttgactat ttctacact 
      gatttgagt aacgcagtt tacgtcact ccggaggag 
      tttaacggg gaacgagtc caaatccgg gccaggcag 
      taccgtctc aaccacaaa gctttcact tacaagatc 
      tacgttaag tcgagtcaa gcccagaaa gccagtgtt 
      agggtttat ttgggcccg aagtacgac gaatatgga 
      cggtacctc aatataagc caaaatagg ctaaacttt 
      gtacagttt gatcatttc gtgtaccaa ctccaagct 
      ggggaaaac acaatcgag cgcaattcc cgccaaagt 
      tatttctac caaaacgac cgaactagt taccaggag 
      ttgtaccaa aaggttttg ggggcgctg gatggcaat 
      gggcagttt agtgtcgag ccaaatgag gcctatttt 
      ggatttccg cgcaggttc ctcttgccc aagggtaat 
      tatggcggc tacgagtac cagttttac gtcattgtg 
      agtccatac gtgccttac caaggccaa caaaccgac 
      tcgaaatac tactaccca agggtggga agtggtgcc 
      cagtacctg gacaactac cccttgggt taccccttc 
      gatcgtccg gttcactac gaccaagtg tacaacaac 
      atccccaat tcgttcgtc tacagtgcg aaaatttac 
      caccgtgat gtggaagat atcaatgca tctagtgcg 
      tccagtcaa tagaatttg attttgtga cgtgtaatt 
      ttttgcaat aaataaaag tttgattga att
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY