Status
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Gene information
General information
TC005387 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: 13847396..13850721
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
    TC005387
    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
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00843

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head 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%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: % (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
    • >TC005387 RA
      MWYVYLSIF CGFLALFIY YKIIKPANF WKKRNVPHE 
      STFALLQRK HPATILTQL YQKHKDQRY VGYLQLNHP 
      FLMIRDLEL IKQLTVKDF ESFHDHYPF SYAKNDPIL 
      GKSLLMLNG QDWKQMRAT LSPAYTTNK LKNMHQLMT 
      ECAQNFVGH FKGREKVAV DMKDIFTRF TTDVIASTA 
      FGIKTDSLN QPNNRFFLM AKSLSKFGF IQVVKILIS 
      SFAKVGIFP SSVVNYFGT IIKSNIRER KQSCIVRPD 
      MIHLMLEAN KGQANQLTD DDIVAQAMT FFFAGFETV 
      ATACSFMAY ELAIHPEIQ QKLQAEIDS VGGVTYESL 
      LSMKFLDQV VSESLRLWP PGFQIERMC TKSYKIEPK 
      NHNEKGIVL EEGVSLIIP VIALHHDPD LFPEPDRFD 
      PERFSEANR SQIVPGSYL PFGVGPRNC IASRFALLE 
      IKTLFFHML SKFDIVPID TTQIPLKLS TKKMHLEPE 
      KGFRLGIRP RKV
    CDS sequence
    • >TC005387 RA
      atgtggtac gtttatttg tccattttt tgtgggttt 
      ttggccctt ttcatttat tacaaaata atcaaaccg 
      gcgaatttt tggaaaaaa cgtaatgta ccccatgag 
      tcaactttt gccctcctt caaagaaaa cacccagcg 
      acaattttg acccaactg taccaaaaa cacaaagac 
      caaagatac gtggggtat ttgcaactc aatcaccct 
      tttctaatg atacgtgac cttgaactg atcaaacaa 
      ctcacagtc aaagacttt gagtcgttc catgaccat 
      tacccgttc agctatgcc aaaaatgac cctattttg 
      ggcaaaagc ttgctcatg ttaaacggc caagactgg 
      aagcagatg agggccacc ttaagcccg gcttacaca 
      acaaataag ttgaaaaat atgcaccaa ctgatgaca 
      gaatgcgcc caaaacttt gtgggccat ttcaaaggc 
      cgggaaaaa gtggctgtt gacatgaag gacattttt 
      acgcgtttt acaaccgat gtgatcgct tccacggcc 
      tttggcatc aaaaccgac tcacttaac caaccaaat 
      aaccgattt ttcctcatg gccaagtcc ttgtccaag 
      ttcgggttc atccaagtt gtgaaaatt ttgatttct 
      tcgtttgcc aaagtcggc attttcccg tcaagtgtt 
      gtgaattat tttggcaca attattaag agtaatatt 
      cgggagagg aaacaaagt tgtattgtg agaccagac 
      atgatccac ttgatgtta gaagccaac aaaggccaa 
      gcaaatcaa ctcacagat gacgacatt gtggcccaa 
      gccatgact ttctttttc gctggcttt gaaactgtg 
      gcaacagct tgctccttc atggcctac gaactggca 
      attcatccc gaaattcag caaaaactc caagcggaa 
      attgactca gttggcggt gtcacgtac gagagtctc 
      ctctcgatg aagtttctg gatcaggtg gtgtcagaa 
      agtttaagg ttgtggccg ccagggttt caaatcgaa 
      cgcatgtgt accaagagt tacaaaatc gagcccaaa 
      aatcacaat gaaaagggg attgttttg gaagagggg 
      gtttcactt attattcca gtgattgcg ctacatcac 
      gacccggat ttgttcccg gaaccggac cggtttgat 
      ccggaacgt tttagtgaa gctaatagg agtcaaatc 
      gttccgggg agttatctg ccgtttgga gtaggtccc 
      cggaattgc atcgcctca aggtttgcc ttacttgaa 
      atcaagaca ctgtttttc catatgtta tcaaaattt 
      gatattgtg cccattgac accactcaa atccctctt 
      aaactaagc accaagaaa atgcatttg gaaccggag 
      aaaggattc agactagga ataagacca agaaaagtc 
      taa
    mRNA sequence
    • >TC005387 RA
      tccaggttc aaggttcgc gctcctcga actcaaaat 
      ccttttttt ccacctttt ggcaaaatt tattcttgt 
      gccttgtga caacacacc aattccgtt aaaacttga 
      ccccaagaa actaacaat gtctccaga aaacggctt 
      ccagttgag tttaaggcg gagattgtt atcaccata 
      aagggtcac gattttgtc acctttgca gtgcatgcc 
      atcttatca gcaatacaa tcgagcagt taattattt 
      ttgtaaccg aatttttgt tacactgtg ataaataaa 
      agaccaaaa catattttg tttgtgtga ccataatta 
      agttatcag ctgtttgat tcgttcaag tgagatgtg 
      gtacgttta tttgtccat tttttgtgg gtttttggc 
      ccttttcat ttattacaa aataatcaa accggcgaa 
      tttttggaa aaaacgtaa tgtacccca tgagtcaac 
      ttttgccct ccttcaaag aaaacaccc agcgacaat 
      tttgaccca actgtacca aaaacacaa agaccaaag 
      atacgtggg gtatttgca actcaatca cccttttct 
      aatgatacg tgaccttga actgatcaa acaactcac 
      agtcaaaga ctttgagtc gttccatga ccattaccc 
      gttcagcta tgccaaaaa tgaccctat tttgggcaa 
      aagcttgct catgttaaa cggccaaga ctggaagca 
      gatgagggc caccttaag cccggctta cacaacaaa 
      taagttgaa aaatatgca ccaactgat gacagaatg 
      cgcccaaaa ctttgtggg ccatttcaa aggccggga 
      aaaagtggc tgttgacat gaaggacat ttttacgcg 
      ttttacaac cgatgtgat cgcttccac ggcctttgg 
      catcaaaac cgactcact taaccaacc aaataaccg 
      atttttcct catggccaa gtccttgtc caagttcgg 
      gttcatcca agttgtgaa aattttgat ttcttcgtt 
      tgccaaagt cggcatttt cccgtcaag tgttgtgaa 
      ttattttgg cacaattat taagagtaa tattcggga 
      gaggaaaca aagttgtat tgtgagacc agacatgat 
      ccacttgat gttagaagc caacaaagg ccaagcaaa 
      tcaactcac agatgacga cattgtggc ccaagccat 
      gactttctt tttcgctgg ctttgaaac tgtggcaac 
      agcttgctc cttcatggc ctacgaact ggcaattca 
      tcccgaaat tcagcaaaa actccaagc ggaaattga 
      ctcagttgg cggtgtcac gtacgagag tctcctctc 
      gatgaagtt tctggatca ggtggtgtc agaaagttt 
      aaggttgtg gccgccagg gtttcaaat cgaacgcat 
      gtgtaccaa gagttacaa aatcgagcc caaaaatca 
      caatgaaaa ggggattgt tttggaaga gggggtttc 
      acttattat tccagtgat tgcgctaca tcacgaccc 
      ggatttgtt cccggaacc ggaccggtt tgatccgga 
      acgttttag tgaagctaa taggagtca aatcgttcc 
      ggggagtta tctgccgtt tggagtagg tccccggaa 
      ttgcatcgc ctcaaggtt tgccttact tgaaatcaa 
      gacactgtt tttccatat gttatcaaa atttgatat 
      tgtgcccat tgacaccac tcaaatccc tcttaaact 
      aagcaccaa gaaaatgca tttggaacc ggagaaagg 
      attcagact aggaataag accaagaaa agtctaagc 
      tatttatta aaataaaaa atacaacta caa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY