Status
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Gene information
General information
TC000534 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: 10121313..10123598
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
    TC000534
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00121

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    remarks: later than schedule, hours 100
    Adult morphology
    remarks: later than schedule, hours 100
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000534 RA
      MISFNTVVH VPKNNNIVQ CLKNALSGK TFSTTATIK 
      IKKKIGFIG DGNMAKALC KSIERRGLI NYSQVYVSS 
      PYIKNLNVW KELGANTTT DNTEVAQKS DIVFLAVKP 
      HMLGEILDK IIKDATASP ISNKLFVSI LAGITLREL 
      EEKTKVFQG SRVIRVMPN TPVVVGEGY TAYCPGQNV 
      TEEDLSIIK SILEVTGSC QLLPEKMIN AVGAISSSG 
      PAFVYLFIE ALSDGGVRM GLHREMSTK IAAQTVMGA 
      AKMVLETSK HMGTLKDEV CSAGGTTIA GVHELEKGG 
      VRGSVMNAV EAAAKRADE LAK
    CDS sequence
    • >TC000534 RA
      atgatttcc ttcaatact gtagttcac gtgcccaaa 
      aataacaat atcgtccaa tgtttgaaa aacgccctg 
      agtggtaaa acctttagc accactgcc accatcaaa 
      atcaaaaag aaaatcggt tttatcggc gatggaaac 
      atggcaaaa gcgttatgt aaaagcatc gaaaggaga 
      ggcttaata aattactcc caagtctac gtctcaagc 
      ccttacata aaaaacctg aacgtatgg aaagaactt 
      ggcgcgaat accacaaca gacaacacc gaagtagcc 
      caaaaatcg gacattgtc ttcctggct gttaagccg 
      cacatgttg ggcgaaatc ctcgataaa ataatcaaa 
      gacgcgaca gccagtcca ataagcaac aaattgttc 
      gtctcgatt ttagccgga ataacttta agagaactg 
      gaggagaaa accaaagtt ttccaaggc tcgcgtgtg 
      ataagagtc atgcccaac acccctgtc gtggtcggc 
      gagggctac acggcctac tgccccggc cagaacgtc 
      accgaagaa gacctctcc atcatcaag tcaatcctc 
      gaggtcacc ggaagttgt caactcctt cccgagaaa 
      atgatcaac gctgtgggc gccatctcg agcagcggg 
      ccggccttc gtgtaccta tttatcgaa gccctgtcg 
      gatgggggc gtccgaatg gggctccac cgagaaatg 
      tcgacgaaa atcgcagca cagacggtc atgggggcc 
      gccaaaatg gtcctggag accagcaaa cacatgggg 
      actttgaaa gacgaagtc tgctctgct ggcggcacc 
      accattgca ggggtgcac gagctggag aaaggggga 
      gtcaggggc tctgttatg aacgcggtg gaagcggcg 
      gcgaaacga gccgacgaa cttgcaaaa taa
    mRNA sequence
    • >TC000534 RA
      tttatttcc gtctggttt atctaacct cggaaataa 
      ctacctcaa ataatacta ttttaaaca gtttttgcc 
      tctattaaa atgatttcc ttcaatact gtagttcac 
      gtgcccaaa aataacaat atcgtccaa tgtttgaaa 
      aacgccctg agtggtaaa acctttagc accactgcc 
      accatcaaa atcaaaaag aaaatcggt tttatcggc 
      gatggaaac atggcaaaa gcgttatgt aaaagcatc 
      gaaaggaga ggcttaata aattactcc caagtctac 
      gtctcaagc ccttacata aaaaacctg aacgtatgg 
      aaagaactt ggcgcgaat accacaaca gacaacacc 
      gaagtagcc caaaaatcg gacattgtc ttcctggct 
      gttaagccg cacatgttg ggcgaaatc ctcgataaa 
      ataatcaaa gacgcgaca gccagtcca ataagcaac 
      aaattgttc gtctcgatt ttagccgga ataacttta 
      agagaactg gaggagaaa accaaagtt ttccaaggc 
      tcgcgtgtg ataagagtc atgcccaac acccctgtc 
      gtggtcggc gagggctac acggcctac tgccccggc 
      cagaacgtc accgaagaa gacctctcc atcatcaag 
      tcaatcctc gaggtcacc ggaagttgt caactcctt 
      cccgagaaa atgatcaac gctgtgggc gccatctcg 
      agcagcggg ccggccttc gtgtaccta tttatcgaa 
      gccctgtcg gatgggggc gtccgaatg gggctccac 
      cgagaaatg tcgacgaaa atcgcagca cagacggtc 
      atgggggcc gccaaaatg gtcctggag accagcaaa 
      cacatgggg actttgaaa gacgaagtc tgctctgct 
      ggcggcacc accattgca ggggtgcac gagctggag 
      aaaggggga gtcaggggc tctgttatg aacgcggtg 
      gaagcggcg gcgaaacga gccgacgaa cttgcaaaa 
      taattgtgc caagtgttt agtctgcgg ttattctat 
      aataaaatt tagtaagat tacgttgtt gctatcttt 
      gaaccgata aaaccgttt tatcaatga ctggtgcgc 
      atttgtaac atttttatt gctaaaata gtgaatgtt 
      ttctgattg atatttcta cttgccaaa atgaacact 
      tacttaatt atcatgttg cccatttct tgcatatac 
      tttataatc atgcttgtt atattgttt gcctatctc 
      agagctaaa aaacaatac actgaaatg ataaaagaa 
      ggtaagaca cagctgtat tagccaact taatccatc 
      gttaatctc gttagggtt ttattttgt ctggaatgg 
      tgggagttt tgtaggaat acctccgga tgtggctga 
      tgatagtaa cgtttgtaa tagatttta aaattttat 
      ttgaaagtg tgcttccag tgggactat cggccggaa 
      ctgagagta gaaattctt actaaatgg taatttgga 
      catacgcgt tctttttgg gaagttcac ttatcgcaa 
      tacatttaa taaccttat cagtagata aaaacgata 
      atacgacgt gacatacaa taaacttat tagatctag 
      aaacaataa aaatggagt ctgttattt agttcgtta 
      ataataagt taataaaaa atggaactg tacctaatt 
      gtattacta ccaatatcg tcaatattc ttattgtgc 
      atgttagtg ttgttagtt ctgtttgag cggataaag 
      aaacaaacc ctacatatg attaacgga ggtaaacca 
      aattacagt tgtttcagt ggataaata taatctttc 
      aggatatta tttcatcca aaaagatga tagttacat 
      tggaattcc acctgaata tatagaaga aggtacaat 
      attagtttg attatcaaa aataaatcg aataattga 
      ttctcttta cagcgggtt tagctataa ggccagacc 
      gggtataga gcaaaaaaa gctgaaggg atctgaaat 
      gtgatcata ccaccaaaa ttataatca attaaactg 
      aaactacaa taaatattt aatataatc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY