Status
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Gene information
General information
TC004425 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: 5348693..5353051
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
    TC004425
    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
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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_03754

    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: 100.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 10 (9 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004425 RA
      MKLHLALGA LCLVLSVWA KDDKKEKED VGTVIGIDL 
      GTTYSCVGV YKNGRVEII ANDQGNRIT PSYVAFTAD 
      GERLIGDAA KNQLTTNPE NTIFDAKRL IGRDWSEQS 
      VQNDIKFFP FKVIEKNSK PHIAVETSQ GNKVFAPEE 
      ISAMVLGKM KETAEAYLG KKVTHAVVT VPAYFNDAQ 
      RQATKDAGT IAGLVVMRI INEPTAAAI AYGLDKKDG 
      EKNVLVFDL GGGTFDVSL LTIDNGVFE VVATNGDTH 
      LGGEDFDQR VMDHFIKLY KKKKGKDIR KDNRAVQKL 
      RREVEKAKR ALSSAHQVR IEIESFFEG DDFSETLTR 
      AKFEELNMD LFRSTMKPV QKVLEDADM NKKDVDEIV 
      LVGGSTRIP KVQQLVKEF FGGKEPSRG INPDEAVAY 
      GAAVQAGVL SGEQDTDAI VLLDVNPLT MGIETVGGV 
      MTKLIPRNT VIPTKKSQV FSTASDNQH TVTIQVYEG 
      ERPMTKDNH LLGKFDLTG IPPAPRGVP QIEVTFEID 
      ANGILQVSA EDKGTGNRE KIVITNDQN RLTPEDIDR 
      MIRDAEKFA DDDKKLKER VEARNELES YAYSLKNQL 
      NDKDKLGSK VSSDEKTKM EEAIDEKIK WLEDNQDTE 
      AEEYKKQKK ELEDVVQPI IAKLYQGAG GAPPPTSED 
      DDDLKDEL
    CDS sequence
    • >TC004425 RA
      atgaagctg catttggcg ttgggggca ctgtgcctc 
      gtcctgtcc gtatgggca aaagatgac aaaaaggag 
      aaggaagac gtgggaaca gtcattggg attgattta 
      gggacaacg tattcgtgt gtcggcgtg tacaaaaac 
      ggtcgcgtg gaaatcatc gccaacgac caaggtaac 
      agaatcacc ccctcgtat gtggccttc accgccgac 
      ggcgagcgt ctcatcggc gacgccgcc aagaatcaa 
      ctcaccacc aaccccgaa aacacaatt ttcgacgcc 
      aagcgtctg attggacgt gactggagc gagcaaagt 
      gtccaaaac gatattaaa ttcttcccg tttaaagtc 
      atcgaaaag aattcaaaa ccacacatt gccgttgaa 
      accagtcaa ggaaacaaa gttttcgcg cctgaggag 
      atctcagcc atggttttg ggcaaaatg aaagaaaca 
      gctgaggct tacttgggc aagaaggtc acccatgct 
      gtggtaacg gtgcctgct tacttcaac gatgctcaa 
      agacaggcc acgaaagat gctgggact attgccggg 
      ttggttgtt atgaggatt attaatgaa ccaactgct 
      gcggcaatt gcctacggt ttggataag aaagacggg 
      gagaagaat gttttggtg tttgatttg ggtggtggt 
      acttttgat gtctcgctc ctgaccatt gataatggg 
      gtgtttgag gtcgtggcg accaatggt gatacccat 
      ctgggtggt gaagatttc gatcagaga gttatggac 
      cacttcatt aaattgtac aagaagaag aagggtaaa 
      gatatcagg aaggacaac cgtgcggtg caaaaattg 
      agacgtgaa gttgaaaaa gcgaaacgt gctttgtct 
      tcagcccat caagttagg atcgaaatt gaatcgttc 
      ttcgaaggt gacgacttt tctgaaact ttaacaagg 
      gccaagttt gaggaattg aacatggac ttgttcaga 
      tctactatg aaaccggtc caaaaggtt ctggaagac 
      gctgatatg aataaaaaa gacgttgat gaaattgtt 
      cttgttggt ggttcaact cgtatcccg aaagtgcaa 
      caattggtt aaggaattt ttcggtggt aaggaaccc 
      tctcgtggg attaaccct gacgaagct gttgcttac 
      ggagcggct gtccaagct ggtgttctc tccggtgaa 
      caagacact gatgctatt gtcctcctt gatgttaat 
      cctttgacc atgggtatt gaaactgta ggaggagtc 
      atgacaaaa ttaatccca cgtaacacc gtaatccct 
      acgaaaaaa tcccaagtc ttttcgacc gcttctgac 
      aaccaacac accgtcacg atccaagtc tatgaaggt 
      gaacgtcct atgaccaag gacaatcac ttgctgggc 
      aaattcgac ttgactgga atccctcca gcaccacgt 
      ggtgtccct cagatcgaa gtcactttc gagatcgac 
      gccaatggt attttgcaa gtttcggcc gaagataaa 
      ggaaccgga aatcgggaa aagattgtt attacgaat 
      gaccagaac cgattgact cctgaagac atcgatcgt 
      atgattaga gacgcggag aagttcgct gatgatgac 
      aagaaattg aaggaacga gttgaagca aggaacgaa 
      ttggagagc tacgcctat tcgttgaag aaccaactg 
      aatgataaa gacaagttg gggtcgaag gtctcaagt 
      gacgagaaa acgaagatg gaagaagcg atcgatgag 
      aagatcaaa tggttggag gataatcaa gacacggaa 
      gctgaagag tacaaaaaa cagaagaag gaattggag 
      gatgttgtg caaccaatc attgcgaag ttgtatcag 
      ggagctggt ggggcacct ccaccaacc agcgaagac 
      gacgatgat cttaaagat gagctgtga
    mRNA sequence
    • >TC004425 RA
      tgtcaaaga attccagtc agtttttgc agttaaaga 
      ggagaatag cgtgtgtaa agtttatcg tgttgagaa 
      agtgcaaga gttttgtat ttttgtaat aattaattg 
      acagaacgc aagaaatca aaagaaatg aagctgcat 
      ttggcgttg ggggcactg tgcctcgtc ctgtccgta 
      tgggcaaaa gatgacaaa aaggagaag gaagacgtg 
      ggaacagtc attgggatt gatttaggg acaacgtat 
      tcgtgtgtc ggcgtgtac aaaaacggt cgcgtggaa 
      atcatcgcc aacgaccaa ggtaacaga atcaccccc 
      tcgtatgtg gccttcacc gccgacggc gagcgtctc 
      atcggcgac gccgccaag aatcaactc accaccaac 
      cccgaaaac acaattttc gacgccaag cgtctgatt 
      ggacgtgac tggagcgag caaagtgtc caaaacgat 
      attaaattc ttcccgttt aaagtcatc gaaaagaat 
      tcaaaacca cacattgcc gttgaaacc agtcaagga 
      aacaaagtt ttcgcgcct gaggagatc tcagccatg 
      gttttgggc aaaatgaaa gaaacagct gaggcttac 
      ttgggcaag aaggtcacc catgctgtg gtaacggtg 
      cctgcttac ttcaacgat gctcaaaga caggccacg 
      aaagatgct gggactatt gccgggttg gttgttatg 
      aggattatt aatgaacca actgctgcg gcaattgcc 
      tacggtttg gataagaaa gacggggag aagaatgtt 
      ttggtgttt gatttgggt ggtggtact tttgatgtc 
      tcgctcctg accattgat aatggggtg tttgaggtc 
      gtggcgacc aatggtgat acccatctg ggtggtgaa 
      gatttcgat cagagagtt atggaccac ttcattaaa 
      ttgtacaag aagaagaag ggtaaagat atcaggaag 
      gacaaccgt gcggtgcaa aaattgaga cgtgaagtt 
      gaaaaagcg aaacgtgct ttgtcttca gcccatcaa 
      gttaggatc gaaattgaa tcgttcttc gaaggtgac 
      gacttttct gaaacttta acaagggcc aagtttgag 
      gaattgaac atggacttg ttcagatct actatgaaa 
      ccggtccaa aaggttctg gaagacgct gatatgaat 
      aaaaaagac gttgatgaa attgttctt gttggtggt 
      tcaactcgt atcccgaaa gtgcaacaa ttggttaag 
      gaatttttc ggtggtaag gaaccctct cgtgggatt 
      aaccctgac gaagctgtt gcttacgga gcggctgtc 
      caagctggt gttctctcc ggtgaacaa gacactgat 
      gctattgtc ctccttgat gttaatcct ttgaccatg 
      ggtattgaa actgtagga ggagtcatg acaaaatta 
      atcccacgt aacaccgta atccctacg aaaaaatcc 
      caagtcttt tcgaccgct tctgacaac caacacacc 
      gtcacgatc caagtctat gaaggtgaa cgtcctatg 
      accaaggac aatcacttg ctgggcaaa ttcgacttg 
      actggaatc cctccagca ccacgtggt gtccctcag 
      atcgaagtc actttcgag atcgacgcc aatggtatt 
      ttgcaagtt tcggccgaa gataaagga accggaaat 
      cgggaaaag attgttatt acgaatgac cagaaccga 
      ttgactcct gaagacatc gatcgtatg attagagac 
      gcggagaag ttcgctgat gatgacaag aaattgaag 
      gaacgagtt gaagcaagg aacgaattg gagagctac 
      gcctattcg ttgaagaac caactgaat gataaagac 
      aagttgggg tcgaaggtc tcaagtgac gagaaaacg 
      aagatggaa gaagcgatc gatgagaag atcaaatgg 
      ttggaggat aatcaagac acggaagct gaagagtac 
      aaaaaacag aagaaggaa ttggaggat gttgtgcaa 
      ccaatcatt gcgaagttg tatcaggga gctggtggg 
      gcacctcca ccaaccagc gaagacgac gatgatctt 
      aaagatgag ctgtgaggt gcaagcaag actgaattt 
      aattacatt ttctagccc aataggtgt ggatgagtg 
      tggattgcg tgcggtttg aataattcg ggtcttgat 
      ttcaaattt cccagtttt ttgtattaa gtagtaaat 
      cttttatat tcaattttt atgtgcgta cgtactggt 
      aacttattt attttttcc acgatcaaa tatgagcgt 
      acgagtgta gattgtaca cttgtattt gacttgtta 
      cgttgtaaa tttttcaaa taaactcgt gaaaaatta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY