Status
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Gene information
General information
TC007479 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: 3902200..3904433
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
    TC007479
    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_01200

    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: 20.0% (includes death as pupa, adult)

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


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 3
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection



    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Pupal morphology
    head slightly orientation irregular - Number of animals showing the phenotype: 9

    wings slightly shortened - Number of animals showing the phenotype: 8

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007479 RA
      MTPSLKISQ KVVNKLSNF SQEILGKLY GIVTKNTFI 
      VLGLQTELE NGSGNALIN SLPAEIYLC GVFQSGSET 
      FNEQSIKSS LAEVYVTDN PVFVHYNSS TNKITAHFY 
      INGQLETTK FAPISEQEI LSQFLYLRL KANVPLTCE 
      LATNSLKDS FTNLRKNVA SGVMSFGLG KNIYLVGSD 
      SEGIVGVTG NPSIGELFE TSEPSEGGA RKKKVQNYE 
      IDVMGVDML KMMTKELGV AEREHAPLC VLDKKQCKT 
      MTIMVSIDS LSMVNRQTK IANLYEILV ESAVRNLRL 
      LESSILEKL QNEDDTIAQ PEVFHFYPD DCGHFVTKI 
      YLKGETEDA LLPVRETLH NELLLSGCR PMFRRANSF 
      AFKTKNPGN EPLINPHLG LKPTDNGGK VALVKGKYA 
      YYHYCQNKM DDNGWGCAY RSLQTLASW FKLQGFTDK 
      EVPTFKDIQ KCLVDLGDK PSSFIGSKQ WIGSTEVNY 
      VLNTLLGVT CKILYVSSG EEMGSKGPE LLSHFENHG 
      SPVMIGGGV LAHTILGVD YNSQSGNLR FLILDPHYT 
      GGEDLHTIQ NKGWCGWKS VDFWDKTAY YNMCLPQVP 
      KGI
    CDS sequence
    • >TC007479 RA
      atgacacct tcgcttaaa atatcgcaa aaagtcgtt 
      aataaactt tcaaacttc agtcaggaa attttggga 
      aaactgtac ggaattgta acaaaaaac acgtttatt 
      gttttggga ttgcaaact gagcttgag aacggatcc 
      ggaaatgcg ttaataaac tcgctaccg gctgaaata 
      tacctttgt ggagttttc caatctggg agtgaaact 
      ttcaatgaa cagtcaatt aagagcagt cttgctgaa 
      gtctacgtt accgacaat cccgttttc gttcactat 
      aactcatct actaacaaa atcaccgca catttctac 
      ataaatggc caactggag accacaaaa tttgcccct 
      atttctgag caagagatc ttgtcacag ttcctttac 
      ttgagactc aaagccaac gtgccttta acatgcgag 
      cttgccacg aattcactc aaggattct ttcactaat 
      ttaaggaaa aatgtagcg tcaggagtt atgtctttt 
      ggacttggt aaaaatatt tatttagtt gggagtgac 
      agtgagggg atcgttgga gtgacgggg aatccctca 
      attggggag ctttttgaa acaagtgaa cccagtgaa 
      gggggtgcc aggaagaaa aaagtacag aattatgaa 
      attgatgtc atgggggtt gatatgctg aaaatgatg 
      acgaaggaa cttggggtt gcggagcgc gaacatgcc 
      ccactatgt gtcttggat aagaaacag tgcaaaacc 
      atgaccatc atggtctcg atcgactcc ctatcaatg 
      gtaaatcgc caaacaaaa atcgcaaat ctttatgag 
      attttagtc gagagtgct gtgagaaat ttgcgcctt 
      ttggaaagc agtatttta gaaaaatta caaaacgag 
      gacgatact attgcacaa ccggaagtt tttcatttt 
      tatcccgac gattgtggc catttcgta acaaaaatc 
      tacctaaaa ggcgaaaca gaggatgct ttattgcca 
      gttcgcgaa acgcttcat aatgagttg ttacttagc 
      ggctgtagg cccatgttt aggcgtgcc aacagtttc 
      gcttttaaa acgaaaaac cctggcaac gaaccacta 
      atcaaccct catttgggg ctcaaaccg acggataac 
      gggggcaaa gtggcgtta gttaagggc aaatacgct 
      tattaccac tactgtcaa aacaaaatg gacgacaat 
      ggctggggt tgcgcttac agatccctg caaacgctg 
      gcgtcctgg ttcaagctt cagggattc accgacaag 
      gaagtcccc acttttaaa gatatacaa aaatgttta 
      gtagacctt ggcgataag ccatcgagt ttcattgga 
      tctaagcaa tggatcggc tcaactgaa gttaattac 
      gttttaaat acactccta ggagtgact tgtaaaata 
      ttgtacgta agttcgggg gaggaaatg gggagtaaa 
      ggcccggaa ctgttgagt catttcgaa aatcacgga 
      tcgccggtt atgattgga gggggagtc ctagcgcac 
      actatcctg ggggtggat tataattcg caaagtggg 
      aatttgagg ttcttgata cttgatccg cactacaca 
      gggggcgag gatttacat acgatacaa aataagggc 
      tggtgtggg tggaaaagt gtggatttt tgggacaaa 
      accgcttat tataacatg tgtttacca caggtcccc 
      aaaggcatt taa
    mRNA sequence
    • >TC007479 RA
      actgttttg tgcgttaaa ttgacaagt ggcacaaaa 
      acatgacac cttcgctta aaatatcgc aaaaagtcg 
      ttaataaac tttcaaact tcagtcagg aaattttgg 
      gaaaactgt acggaattg taacaaaaa acacgttta 
      ttgttttgg gattgcaaa ctgagcttg agaacggat 
      ccggaaatg cgttaataa actcgctac cggctgaaa 
      tataccttt gtggagttt tccaatctg ggagtgaaa 
      ctttcaatg aacagtcaa ttaagagca gtcttgctg 
      aagtctacg ttaccgaca atcccgttt tcgttcact 
      ataactcat ctactaaca aaatcaccg cacatttct 
      acataaatg gccaactgg agaccacaa aatttgccc 
      ctatttctg agcaagaga tcttgtcac agttccttt 
      acttgagac tcaaagcca acgtgcctt taacatgcg 
      agcttgcca cgaattcac tcaaggatt ctttcacta 
      atttaagga aaaatgtag cgtcaggag ttatgtctt 
      ttggacttg gtaaaaata tttatttag ttgggagtg 
      acagtgagg ggatcgttg gagtgacgg ggaatccct 
      caattgggg agctttttg aaacaagtg aacccagtg 
      aagggggtg ccaggaaga aaaaagtac agaattatg 
      aaattgatg tcatggggg ttgatatgc tgaaaatga 
      tgacgaagg aacttgggg ttgcggagc gcgaacatg 
      ccccactat gtgtcttgg ataagaaac agtgcaaaa 
      ccatgacca tcatggtct cgatcgact ccctatcaa 
      tggtaaatc gccaaacaa aaatcgcaa atctttatg 
      agattttag tcgagagtg ctgtgagaa atttgcgcc 
      ttttggaaa gcagtattt tagaaaaat tacaaaacg 
      aggacgata ctattgcac aaccggaag tttttcatt 
      tttatcccg acgattgtg gccatttcg taacaaaaa 
      tctacctaa aaggcgaaa cagaggatg ctttattgc 
      cagttcgcg aaacgcttc ataatgagt tgttactta 
      gcggctgta ggcccatgt ttaggcgtg ccaacagtt 
      tcgctttta aaacgaaaa accctggca acgaaccac 
      taatcaacc ctcatttgg ggctcaaac cgacggata 
      acgggggca aagtggcgt tagttaagg gcaaatacg 
      cttattacc actactgtc aaaacaaaa tggacgaca 
      atggctggg gttgcgctt acagatccc tgcaaacgc 
      tggcgtcct ggttcaagc ttcagggat tcaccgaca 
      aggaagtcc ccactttta aagatatac aaaaatgtt 
      tagtagacc ttggcgata agccatcga gtttcattg 
      gatctaagc aatggatcg gctcaactg aagttaatt 
      acgttttaa atacactcc taggagtga cttgtaaaa 
      tattgtacg taagttcgg gggaggaaa tggggagta 
      aaggcccgg aactgttga gtcatttcg aaaatcacg 
      gatcgccgg ttatgattg gagggggag tcctagcgc 
      acactatcc tgggggtgg attataatt cgcaaagtg 
      ggaatttga ggttcttga tacttgatc cgcactaca 
      cagggggcg aggatttac atacgatac aaaataagg 
      gctggtgtg ggtggaaaa gtgtggatt tttgggaca 
      aaaccgctt attataaca tgtgtttac cacaggtcc 
      ccaaaggca tttaaatac aatgattat atttcttaa 
      tttacggtt aaataaagg atgttttgc aca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY