Status
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Gene information
General information
TC000216 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: 14555441..14579583
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
    TC000216
    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
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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_07911

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    Comment: potentially nervous system outside of larva
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    labium not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    head appendages orientation irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    head bristle pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    thorax not closed - Penetrance (percentage of animals/eggs on slide): more than 80%

    thorax shape thinner - Penetrance (percentage of animals/eggs on slide): more than 80%

    abdomen not closed - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen shape thinner - Penetrance (percentage of animals/eggs on slide): more than 80%
    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
    • >TC000216 RA
      MGISENKAC NCKADKVKG DDIFSPLKG KMKVLKKIK 
      RRMGLASRS GSNGGGTNN LPPLLFHNV HGENIRISR 
      DGTIARRVE SFCKGIAFS SRPVKVNEK ICIKFLEIS 
      NNWSGVIRF GFTFNDPSS LRYGLPKYA CPDLTNKPG 
      YWAKALPER FCSQNTVLF YYVTSTGDV HFGINGEEK 
      GIFFSSVET RGPLWALID VYGNSTAIE FVDIRHQLN 
      NSRRNIASN SCENPPEDV DRIIYRMEQ VHIQQRDNE 
      DLSLPLLRY QPPQLNFNP MMLHRTRGR NVRFGSTRN 
      NAYRTDTEF CQGYVFTAR PLQLGERVV VQILATEPM 
      FQGCLGLGL TSCDPATLQ SGDLPDDSN FLLDRPEYW 
      VLSRDFARN LNKGDEISY CISPTGEVQ ISRNGDSPL 
      VVIHVDQTL RLWAFFDIY GSTQRIRVL SCPAPVSPV 
      RNFERRIIS PSATESMNS INSQSEIRR NSVMQSNSR 
      LCCVAPADI QVQPATNGG AVLSVILPP AHANFLNQQ 
      TQTVHVNHQ NSVHTQNGH GPHPSYVGP AIPISPVVA 
      PVPNLQPTG TMISTCSST YVEPISDSS SYSTPLGWA 
      EVNGATVGT GTECTICYE NSIDAVLYM CGHMCMCYE 
      CALQQWRGK GGGHCPLCR AVIRDVIRT YKS
    CDS sequence
    • >TC000216 RA
      atggggata tctgaaaat aaagcttgc aactgcaaa 
      gccgataag gtcaaaggg gacgatatc ttctcgcct 
      ttgaaagga aaaatgaag gtcctcaag aaaatcaaa 
      aggcggatg ggattagct tcaaggtct ggatctaat 
      ggaggtgga actaacaat ttgccccca ttgctgttc 
      cacaacgtc cacggggag aatatcagg atttcgagg 
      gacggaacg atcgcgaga cgagttgag agtttttgc 
      aaaggcatc gctttcagc tcgcgccca gtcaaagtc 
      aacgaaaaa atttgtatc aaatttttg gaaatttcc 
      aacaactgg agcggcgtt attcggttc gggttcacg 
      tttaacgac ccgagtagt ctacggtac ggacttcca 
      aaatacgcc tgtccggac ctgaccaac aagcctggc 
      tactgggct aaggccctc cctgagcgc ttctgcagc 
      caaaacacc gtgttattc tactacgtc acttcgact 
      ggtgacgtc catttcgga atcaacggt gaagaaaaa 
      gggattttt ttcagtagt gttgaaacg cgaggcccc 
      ttatgggcc ctgatcgat gtttatggc aactcaact 
      gcgatcgaa ttcgttgat atccgccac cagttgaac 
      aattctcgc cggaatatt gcctcaaac agttgcgag 
      aatccgcct gaagatgtg gaccggatc atctatcgc 
      atggagcaa gtgcatatc cagcagagg gacaacgag 
      gacttgtcc ctgcctctc ttgcggtac caacccccc 
      cagctcaat ttcaacccc atgatgctg caccggacc 
      cggggtcgg aacgtgcgc ttcgggagc acgcggaac 
      aacgcctac agaacggac acggagttc tgccaaggc 
      tacgtcttc acggccagg cctttgcag ttgggcgaa 
      cgcgtcgtg gtgcagatc ctagccacg gagcccatg 
      ttccaaggc tgtctaggc ctgggcctc acctcgtgc 
      gaccccgcg accctgcaa tcgggcgac ctccccgac 
      gactccaat ttcctgctc gaccgtccc gagtactgg 
      gttttgagc cgcgacttc gcccgcaat ttgaacaaa 
      ggcgacgaa atcagctac tgcatttcg ccgaccggc 
      gaagtgcaa atcagccgc aacggtgac agcccgctg 
      gtcgtcatc cacgtcgac cagacgctg cgtctttgg 
      gcgtttttc gacatttac gggtccacg cagcgaatc 
      cgcgtcttg agctgtccg gctcccgtg tccccggtg 
      cggaacttc gagcgcagg attatctcg ccttcggcc 
      accgagtcc atgaacagc atcaatagc cagtcggaa 
      attcggcgg aattcggtc atgcagtcg aattcgagg 
      ttgtgttgt gtggcgccg gccgatatc caggtgcag 
      cccgcgacg aatggcggg gctgtgctc tcggtcatc 
      ctgccacca gctcatgcc aatttcctc aatcagcaa 
      acacaaact gtgcatgtt aaccaccag aattccgtg 
      catacgcag aatggacat gggccgcat cctagttat 
      gtcgggcct gcgatcccc atttcgccg gtggtggcg 
      cccgtgccc aacctacag cccaccggg accatgatc 
      tccacctgc agcagtact tacgtcgag ccgatctcc 
      gactcgagt tcgtactcg acgccgctg ggctgggcc 
      gaggtgaac ggggcgacg gtgggcacc ggcaccgaa 
      tgcacgata tgctacgag aactcaatc gatgccgtc 
      ctttatatg tgcgggcac atgtgcatg tgttacgaa 
      tgtgcgctg caacaatgg cggggcaaa ggtggaggg 
      cactgccct ttgtgcagg gccgtaatt agggacgtg 
      attcgtacg tacaagtcg tag
    mRNA sequence
    • >TC000216 RA
      tcataaatc tgtcaatta aaaatcatc agaattgtg 
      tttattttt gtgtccgga taaaattac gaaccaatt 
      atgttggga ttgacttat tttaataaa tttagtgcc 
      ggttaaaat attttaaaa ttaaatcat tgtttttaa 
      gtgttgtca tgattcaag ttttaattt tatgttaaa 
      aatttacat tttaacgtt ttattcaaa gaaacggta 
      tggggcaga ccgccagcg gcataccaa tccttctga 
      agtcctcgg aaggagtgg tgtgtctca gttcttcgt 
      caaagtcgc gttcttttc aattttttg ctctctagt 
      ctttggtgt ctcttggtg taatggcag tcagtgtta 
      ttagtgaat agaaacttt cgtgctcgt gttatcttg 
      atggggata tctgaaaat aaagcttgc aactgcaaa 
      gccgataag gtcaaaggg gacgatatc ttctcgcct 
      ttgaaagga aaaatgaag gtcctcaag aaaatcaaa 
      aggcggatg ggattagct tcaaggtct ggatctaat 
      ggaggtgga actaacaat ttgccccca ttgctgttc 
      cacaacgtc cacggggag aatatcagg atttcgagg 
      gacggaacg atcgcgaga cgagttgag agtttttgc 
      aaaggcatc gctttcagc tcgcgccca gtcaaagtc 
      aacgaaaaa atttgtatc aaatttttg gaaatttcc 
      aacaactgg agcggcgtt attcggttc gggttcacg 
      tttaacgac ccgagtagt ctacggtac ggacttcca 
      aaatacgcc tgtccggac ctgaccaac aagcctggc 
      tactgggct aaggccctc cctgagcgc ttctgcagc 
      caaaacacc gtgttattc tactacgtc acttcgact 
      ggtgacgtc catttcgga atcaacggt gaagaaaaa 
      gggattttt ttcagtagt gttgaaacg cgaggcccc 
      ttatgggcc ctgatcgat gtttatggc aactcaact 
      gcgatcgaa ttcgttgat atccgccac cagttgaac 
      aattctcgc cggaatatt gcctcaaac agttgcgag 
      aatccgcct gaagatgtg gaccggatc atctatcgc 
      atggagcaa gtgcatatc cagcagagg gacaacgag 
      gacttgtcc ctgcctctc ttgcggtac caacccccc 
      cagctcaat ttcaacccc atgatgctg caccggacc 
      cggggtcgg aacgtgcgc ttcgggagc acgcggaac 
      aacgcctac agaacggac acggagttc tgccaaggc 
      tacgtcttc acggccagg cctttgcag ttgggcgaa 
      cgcgtcgtg gtgcagatc ctagccacg gagcccatg 
      ttccaaggc tgtctaggc ctgggcctc acctcgtgc 
      gaccccgcg accctgcaa tcgggcgac ctccccgac 
      gactccaat ttcctgctc gaccgtccc gagtactgg 
      gttttgagc cgcgacttc gcccgcaat ttgaacaaa 
      ggcgacgaa atcagctac tgcatttcg ccgaccggc 
      gaagtgcaa atcagccgc aacggtgac agcccgctg 
      gtcgtcatc cacgtcgac cagacgctg cgtctttgg 
      gcgtttttc gacatttac gggtccacg cagcgaatc 
      cgcgtcttg agctgtccg gctcccgtg tccccggtg 
      cggaacttc gagcgcagg attatctcg ccttcggcc 
      accgagtcc atgaacagc atcaatagc cagtcggaa 
      attcggcgg aattcggtc atgcagtcg aattcgagg 
      ttgtgttgt gtggcgccg gccgatatc caggtgcag 
      cccgcgacg aatggcggg gctgtgctc tcggtcatc 
      ctgccacca gctcatgcc aatttcctc aatcagcaa 
      acacaaact gtgcatgtt aaccaccag aattccgtg 
      catacgcag aatggacat gggccgcat cctagttat 
      gtcgggcct gcgatcccc atttcgccg gtggtggcg 
      cccgtgccc aacctacag cccaccggg accatgatc 
      tccacctgc agcagtact tacgtcgag ccgatctcc 
      gactcgagt tcgtactcg acgccgctg ggctgggcc 
      gaggtgaac ggggcgacg gtgggcacc ggcaccgaa 
      tgcacgata tgctacgag aactcaatc gatgccgtc 
      ctttatatg tgcgggcac atgtgcatg tgttacgaa 
      tgtgcgctg caacaatgg cggggcaaa ggtggaggg 
      cactgccct ttgtgcagg gccgtaatt agggacgtg 
      attcgtacg tacaagtcg tagacgctg tctggtttt 
      agtattatt gctagtgac tagctcaag aagagagag 
      aatatattt tcatcgttt tccaagtta ctacatgaa 
      acctaagtt attataagt gcttccatt tgagacaac 
      tgcctaaaa ccagagttt taagtgcgg atggtgaaa 
      agactgaac ctcgttgat tgctggaat actatttaa 
      tatatttgt cctgtccat ttgttaatg tgtttataa 
      cgtttagtt gttttattc atatggcta tttttagtt 
      tgtaataag accaaagag agcagtaaa ttagtcaca 
      actgctgga tcatttgta ggttcgcgg agagtgaac 
      gtagtcagc tgccgatgc agtttaaac ttatttatt 
      tattttatc aaacacaaa attattctt attatttat 
      agtgctcct acaaactac tcaatgtta gaggtttat 
      ttgactatt ctcagactc gactttcgt atcccgacc 
      tattgttga tgttttgag gcatttgca gagtgtata 
      acaagtgat aaacattcc tatgaagaa ttaaatact 
      ttactggcc agttcttat tttttaatc aggcattct 
      taagtgact ccgttattc gaaaactga cactttcga 
      agatggatc ttttgtata atagtattt ctagtcata 
      agaatgtgc tgacttagt tcgacatgt tagttcaat 
      tattatact attattctt aaataaaat gttatctat 
      tac
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