Status
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Gene information
General information
TC005937 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: 5203373..5212896
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
    TC005937
    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
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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_09282

    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: 70.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    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
    • >TC005937 RA
      MSKDKAILL RVQSPEGTK RIEVSASDS TCKLFERVH 
      DSFDLSSFA FALYKERNQ KNEIPSSKS RTVAGLGLR 
      HGDMIYLCP LNGAVLFPT GNNTPSGEP VPREPTPST 
      SSGVSNSRP SSSVSLNFK QTVKEDPVD LQLYKLDGK 
      IERKQDPKL CRHNSNSRC VHCSALEPY DEAYLREHN 
      VKHLSFHAY LRKMTSGVD KGKFLALED ISCRIKNGC 
      KDHPPWPKG ICSKCQPNA ITLNRQVYR HVDNVAFEN 
      KDLVERFLN YWRSTGHQR IGFLYGNYE IHNDVPLGI 
      RANVVAIYE PPQESSRDS IHLLRDDKE EIVEELAQN 
      LGLRRVGWI FTDLIPEDV QKGTVKHLR HINSHFLSA 
      EECIMAGHF QNMYPNPCR FASGGYFGS KIVTVCVTG 
      DKTNQVHME GYQVSNQCM ALVRDNCLL PTKDAPELG 
      YVRESSDKQ FVPDVYYKV SRL
    CDS sequence
    • >TC005937 RA
      atgtccaaa gataaagca atactattg agggtgcag 
      tcccccgaa ggcacaaag cggatcgaa gtcagcgct 
      tcggactcc acgtgcaag ttattcgag cgcgtccac 
      gactctttt gacttgagc agttttgcg ttcgctttg 
      tacaaagaa cggaaccag aaaaatgag atccccagc 
      agcaaatcg cggactgtg gctggcctg ggcctccgc 
      cacggcgac atgatctat ctgtgcccc ctaaacggg 
      gctgtcttg ttccccacg gggaacaac acgccgtcg 
      ggtgagcct gtcccgagg gaaccgacc ccgtctaca 
      agctccgga gtgagcaat tcgcgacca agcagcagt 
      gttagcctc aactttaag caaacggtt aaggaggac 
      ccagtggac ctccagttg tataaactt gacggcaag 
      atcgaaagg aagcaggac cccaaatta tgtcgccac 
      aatagcaac tctcgctgt gtccactgc tcggccctg 
      gagccctac gacgaggct tatttgcgc gaacacaac 
      gtcaaacat ttgtcgttt cacgcttat ttgcgtaaa 
      atgacgtcg ggagtggac aagggcaag tttttggcc 
      cttgaagac atctcctgt cggatcaaa aacgggtgc 
      aaagaccac ccaccatgg cccaaaggg atctgttca 
      aaatgccaa cccaatgca atcactttg aaccgccaa 
      gtctacaga catgtcgat aatgtcgct tttgaaaac 
      aaagacttg gtcgagcga tttttaaac tattggagg 
      tccacagga caccaaaga atcggattt ttgtacggc 
      aattacgaa attcacaac gatgtgcct ttaggtatc 
      agagccaat gtcgtggcg atttatgag ccccctcag 
      gaaagcagt cgcgactcc attcacctg ttgcgggac 
      gacaaagag gaaattgtg gaggagttg gctcagaat 
      ttggggctg cgaagagtc ggctggatt ttcaccgat 
      ctcatcccg gaagatgtc caaaagggc acagttaaa 
      cacttaaga catattaat agtcatttc ttatcagca 
      gaggagtgc atcatggct gggcatttc caaaacatg 
      taccccaat ccctgcaga tttgcctcg gggggctat 
      ttcggctcg aagattgtc accgtttgc gtcacaggg 
      gataagacg aaccaggtg cacatggag ggctaccaa 
      gtgtcgaac cagtgcatg gcgctggtg cgcgacaac 
      tgtcttttg ccgacgaag gacgccccc gagctcggc 
      tacgttcgc gaatcttcg gataagcag ttcgtcccc 
      gacgtgtac tacaaggta agtaggcta tga
    mRNA sequence
    • >TC005937 RA
      tttgccaat ttttcaaaa atcaaaccg gtggtttgg 
      tgacttcgg ctcgtcgag gttggcatt cgtgccggt 
      tgacaattc gacttgaaa tagtactga ctaagctta 
      taaaaatat acatgaatt ttttacaat gtccaaaga 
      taaagcaat actattgag ggtgcagtc ccccgaagg 
      cacaaagcg gatcgaagt cagcgcttc ggactccac 
      gtgcaagtt attcgagcg cgtccacga ctcttttga 
      cttgagcag ttttgcgtt cgctttgta caaagaacg 
      gaaccagaa aaatgagat ccccagcag caaatcgcg 
      gactgtggc tggcctggg cctccgcca cggcgacat 
      gatctatct gtgccccct aaacggggc tgtcttgtt 
      ccccacggg gaacaacac gccgtcggg tgagcctgt 
      cccgaggga accgacccc gtctacaag ctccggagt 
      gagcaattc gcgaccaag cagcagtgt tagcctcaa 
      ctttaagca aacggttaa ggaggaccc agtggacct 
      ccagttgta taaacttga cggcaagat cgaaaggaa 
      gcaggaccc caaattatg tcgccacaa tagcaactc 
      tcgctgtgt ccactgctc ggccctgga gccctacga 
      cgaggctta tttgcgcga acacaacgt caaacattt 
      gtcgtttca cgcttattt gcgtaaaat gacgtcggg 
      agtggacaa gggcaagtt tttggccct tgaagacat 
      ctcctgtcg gatcaaaaa cgggtgcaa agaccaccc 
      accatggcc caaagggat ctgttcaaa atgccaacc 
      caatgcaat cactttgaa ccgccaagt ctacagaca 
      tgtcgataa tgtcgcttt tgaaaacaa agacttggt 
      cgagcgatt tttaaacta ttggaggtc cacaggaca 
      ccaaagaat cggattttt gtacggcaa ttacgaaat 
      tcacaacga tgtgccttt aggtatcag agccaatgt 
      cgtggcgat ttatgagcc ccctcagga aagcagtcg 
      cgactccat tcacctgtt gcgggacga caaagagga 
      aattgtgga ggagttggc tcagaattt ggggctgcg 
      aagagtcgg ctggatttt caccgatct catcccgga 
      agatgtcca aaagggcac agttaaaca cttaagaca 
      tattaatag tcatttctt atcagcaga ggagtgcat 
      catggctgg gcatttcca aaacatgta ccccaatcc 
      ctgcagatt tgcctcggg gggctattt cggctcgaa 
      gattgtcac cgtttgcgt cacagggga taagacgaa 
      ccaggtgca catggaggg ctaccaagt gtcgaacca 
      gtgcatggc gctggtgcg cgacaactg tcttttgcc 
      gacgaagga cgcccccga gctcggcta cgttcgcga 
      atcttcgga taagcagtt cgtccccga cgtgtacta 
      caaggtaag taggctatg aaaaaaatc acgtcgagt 
      tacagatgc ggaaagtaa tttatttga aatctagag 
      tgaagtggt agtaggtac tcattatca caaatatta 
      gtcgggtac aaggcacaa acactggct gctatattt 
      aagtttcgc atgaggggt ttctgtttt tttttgctt 
      ttttctact atttttcta actaccgac atgatatca 
      caacacgca gcctttttc gaacaatga gacgacagt 
      tctactata ttagaatta ttattgtat tttgttatc 
      cgacgacgt gatatcatg tccgcttac ataaatgat 
      gatctaagc tagttcaaa aaactttac aacgattct 
      agtctattt agacgattt ttgtttcat tatttgcac 
      atttattct gcaacacat ctaatatct agtcaccgt 
      ggcgggtac atcaggggg cggggtttc cccctccac 
      cggatttac ccaactcgg cgaacaggg tatagtaaa 
      gacagttga aaagggcag aaaaagaag ggtggtgtg 
      gaacaaaat ggacggaaa ttagtgtca aaaaaatca 
      acaaaatat tttgacagc gaccacccg aaaatcgga 
      cgatgaagg gcaaagtgc gcactgagc agtgtctta 
      attacacga aaaaatcaa tcgtgaaaa tcatgagca 
      aaaattgaa gggttgaaa tctcgcttc atcgtacga 
      ttgcgcccg tttaacacc gatttttac acatttatt 
      agacaaata cgcgttatg aaagattgg cgaaacatt 
      tagttggaa ttttactca tttaggctt acatttaat 
      taggctatg atatttgtc gcgctactt attacctaa 
      cgttttgta tctttttgt ggaaatatt gatacgagt 
      actgcttca ttttcgatc atttgaccc actctactc 
      cagcgataa aaaaataaa gtgccacta ctttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY