Status
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Gene information
General information
TC007349 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_007419.2: 5810039..5812116
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
    TC007349
    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
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    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_01169

    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)

    Adult morphology
    odoriferous glands colour darker - Number of animals showing the phenotype: 4 (13 dpi)
    Days post injection



    abdominal odoriferous glands content necrotic - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection


    abdominal odoriferous glands content darker - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection



    abdominal odoriferous glands potentially content not present - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection



    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature random pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    labrum not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC007349 RA
      MHKYNKLLI LFPLFVTIR ASERPNVIF ILADDLGWN 
      DVGFHGSGQ IPTPNIDAL AYSGLILQN YYVTPICTP 
      SRSALMTGK YPIHTGMQH TVLFGAEPR GLPLTEKIL 
      PEYLRELGY TNRLVGKWH LGSYTKEYT PLYRGFDSH 
      LGYWTGHQD YYDHTAVEN PGWGFDMRR NMDLAYDLH 
      GQYSTDVFT QEAVKIIEN HNTTNPLFL YLAHVAVHS 
      ANPYNPLPA PDETVEKFS NIPSYKRQR FAAMLSKLD 
      DSVGAVVES LSKRKMLKN SIIIFSTDN GGAAAGFNL 
      NAASNFPLR GVKNTVWEG GVRGAGLLW SPLIKQPQR 
      VAQQFMHIS DWLPTLLSA VGANSSLKN IDGLDLWES 
      LSQNKNSPR SEILHNIDD IYGNAALTV GAWKLVKGT 
      TYNGAWDGW YGPSGRDYT YDLSLVVNS PTGVALKSI 
      NMSLVPDEI TKLRNASRI DCATDQPIP CKPLEETCL 
      FNVIQDPCE LRNLAKENP KIVMNLEET LNKYNNTAL 
      PPGNLPLDP RGNPKYWNN TWTNFGDYI KEKSSLYRV 
      EIL
    CDS sequence
    • >TC007349 RA
      atgcacaaa tacaacaaa cttttgatt ttattcccc 
      ctgtttgtc acaattcgc gcaagtgag cgtccgaac 
      gtgattttt atccttgcg gacgatttg ggatggaac 
      gacgtcggt tttcacggt tcgggtcaa atcccgacg 
      cccaacatc gacgcattg gcttactcg ggcctcatc 
      ctccaaaac tattacgtc actccgatt tgcaccccc 
      tcccggagc gccctaatg accggaaaa taccccatc 
      cacaccgga atgcagcac actgtgctc ttcggtgca 
      gaaccccgg gggttgccc ctcacggag aaaatcctc 
      ccggaatat ttaagagag ttagggtac actaaccgg 
      ctcgtgggg aaatggcat ttagggtca tacacgaag 
      gaatatacg ccgctttac cgcggtttt gactcacat 
      ttgggctat tggaccggt catcaggat tattacgac 
      cacactgcg gtcgaaaac ccgggttgg gggttcgat 
      atgaggagg aatatggac ttggcgtac gatctccat 
      ggacaatac tccaccgat gtttttacg caagaagcg 
      gtcaaaatt atagaaaat cacaatacg actaatccg 
      ctttttctc tacttggct cacgttgct gtgcattct 
      gccaaccct tacaacccc ttaccggcg cctgacgaa 
      acggtggag aagttctca aacatcccc agttacaag 
      agacagaga tttgcggct atgttatca aagctggac 
      gattccgtc ggtgctgtg gtcgaaagc ctttcaaag 
      agaaaaatg ttgaaaaat tccattatt attttctcg 
      actgataac gggggcgca gccgctggt tttaactta 
      aatgcggca tcgaatttc cctttaaga ggggtcaaa 
      aacacggtt tgggagggc ggcgtccga ggggcaggc 
      ttattgtgg agccccctc atcaaacaa ccccaacga 
      gtggcccaa caattcatg cacatcagt gattggttg 
      ccgactttg ttaagtgca gtcggggct aattcaagt 
      ttaaaaaac attgatggg cttgatctc tgggagtct 
      ttatcgcaa aataagaac tcgccccga agtgagatt 
      ttacacaac attgacgat atttacgga aatgccgct 
      ttgacagtc ggggcttgg aaacttgtc aaaggaaca 
      acgtacaat ggggcttgg gacggttgg tacgggccg 
      tccggccgt gattacacg tacgacctg tcgttagtt 
      gtaaattct ccaactgga gttgcttta aaatcgatc 
      aatatgtcg ttagttcct gatgaaata acaaagttg 
      agaaatgcg tcccggatt gattgtgcg acggatcag 
      ccgattccg tgcaaacca ctcgaagaa acgtgtttg 
      tttaacgta atccaggat ccttgcgaa ttgagaaac 
      cttgccaaa gagaatccg aaaatcgtg atgaacttg 
      gaggagacg cttaataaa tataataat acagccctt 
      ccacctgga aatttgcct ctggatccg agaggcaac 
      ccgaaatat tggaacaac acctggacg aatttcggg 
      gattatatc aaggaaaag agttcattg tatcgagtg 
      gaaattttg taa
    mRNA sequence
    • >TC007349 RA
      tgaattaac agttagccc gaggtgtta aacaataat 
      cgaacacat attcaaccg caaaaccag tacgtgcac 
      atttctctc ggaaaaaag cctctaccg gttgtgata 
      aaaatacgt gctgtagta aactcgagt gtcgttcaa 
      atttgtgat aattactat caattcttt acatatcac 
      cgtctgacc tgaatgcaa aattcgcgc aaaattcaa 
      tcgatcgct ccgaaatgc acaaataca acaaacttt 
      tgattttat tccccctgt ttgtcacaa ttcgcgcaa 
      gtgagcgtc cgaacgtga tttttatcc ttgcggacg 
      atttgggat ggaacgacg tcggttttc acggttcgg 
      gtcaaatcc cgacgccca acatcgacg cattggctt 
      actcgggcc tcatcctcc aaaactatt acgtcactc 
      cgatttgca ccccctccc ggagcgccc taatgaccg 
      gaaaatacc ccatccaca ccggaatgc agcacactg 
      tgctcttcg gtgcagaac cccgggggt tgcccctca 
      cggagaaaa tcctcccgg aatatttaa gagagttag 
      ggtacacta accggctcg tggggaaat ggcatttag 
      ggtcataca cgaaggaat atacgccgc tttaccgcg 
      gttttgact cacatttgg gctattgga ccggtcatc 
      aggattatt acgaccaca ctgcggtcg aaaacccgg 
      gttgggggt tcgatatga ggaggaata tggacttgg 
      cgtacgatc tccatggac aatactcca ccgatgttt 
      ttacgcaag aagcggtca aaattatag aaaatcaca 
      atacgacta atccgcttt ttctctact tggctcacg 
      ttgctgtgc attctgcca acccttaca accccttac 
      cggcgcctg acgaaacgg tggagaagt tctcaaaca 
      tccccagtt acaagagac agagatttg cggctatgt 
      tatcaaagc tggacgatt ccgtcggtg ctgtggtcg 
      aaagccttt caaagagaa aaatgttga aaaattcca 
      ttattattt tctcgactg ataacgggg gcgcagccg 
      ctggtttta acttaaatg cggcatcga atttccctt 
      taagagggg tcaaaaaca cggtttggg agggcggcg 
      tccgagggg caggcttat tgtggagcc ccctcatca 
      aacaacccc aacgagtgg cccaacaat tcatgcaca 
      tcagtgatt ggttgccga ctttgttaa gtgcagtcg 
      gggctaatt caagtttaa aaaacattg atgggcttg 
      atctctggg agtctttat cgcaaaata agaactcgc 
      cccgaagtg agattttac acaacattg acgatattt 
      acggaaatg ccgctttga cagtcgggg cttggaaac 
      ttgtcaaag gaacaacgt acaatgggg cttgggacg 
      gttggtacg ggccgtccg gccgtgatt acacgtacg 
      acctgtcgt tagttgtaa attctccaa ctggagttg 
      ctttaaaat cgatcaata tgtcgttag ttcctgatg 
      aaataacaa agttgagaa atgcgtccc ggattgatt 
      gtgcgacgg atcagccga ttccgtgca aaccactcg 
      aagaaacgt gtttgttta acgtaatcc aggatcctt 
      gcgaattga gaaaccttg ccaaagaga atccgaaaa 
      tcgtgatga acttggagg agacgctta ataaatata 
      ataatacag cccttccac ctggaaatt tgcctctgg 
      atccgagag gcaacccga aatattgga acaacacct 
      ggacgaatt tcggggatt atatcaagg aaaagagtt 
      cattgtatc gagtggaaa ttttgtaat aaaaatgtt 
      tgtacaatt gtgtgtgtt ttttgattt c
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY