Status
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Gene information
General information
TC008103 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: 5030553..5034414
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
      TC008103
      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
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      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_04426

      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: 50.0% (includes death as pupa, adult)

      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 5 (3 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, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

      larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
      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): 50% - 80%
      larva appendages partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      gnathal appendages mostly not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      procephalic appendages sometimes not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

      thorax partially not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 30.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

      larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
      Days post injection


      eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
      Days post injection


      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC008103 RA
        MKDLEISKG LKDEIETNQ NQLKNAIRN HQSFVIRLK 
        QDPDNVNLQ KEINKAEQE IILVGITQK SLLERLREE 
        YKAHQKSLK TNITKTSIE ERRFNLSTA LNRARKQNI 
        VSRPTSISV SSVSDDSVE AASVNSSPE HHTFNPVDP 
        HEVTQPEFL NNFGLVTHD VYKEMQNKR VERKRRSTA 
        NPHFLYGNK GWDFQPKRK RNAYLYSSI SPPNTRQAV 
        RKKNERVSP PPTNGNAKL PFPQIPNLP SGLTIERVS 
        PTSSSSDSK TCVTCRQPG LLTTCESCS NGFHVRCHN 
        RPLAQPPRQ CPRCINKEV RTVGSLNVP SGMSVSYVT 
        PSEVAEKLE EKKKLEKVN KTLSAELTQ LQDRHSQLT 
        ISLKRQKSQ QEELLMTQQ TTEDKIKQI LTFISNVKN 
        EIVSKPTQP QAQT
      CDS sequence
      • >TC008103 RA
        atgaaggac ttggaaata agtaaaggg ctcaaggac 
        gagatagaa accaaccaa aaccaactg aaaaatgct 
        atccgtaat catcagagt tttgtcatc agactgaag 
        caggaccct gacaatgtt aatttgcaa aaagaaatc 
        aacaaggcc gaacaggaa ataatcctc gtcggtatc 
        acacagaaa agtctcctg gaacgcctc cgcgaggaa 
        tacaaagct catcaaaag tcgctcaaa accaacatt 
        acaaaaact agcatcgag gagagacgt tttaacctg 
        agcacggcc ctgaacaga gcccgtaaa caaaacatt 
        gtgtctcgc cccacgtcc atctcggtg tcgtcagtc 
        tccgacgat tcggtggag gcagcttcc gttaattct 
        tcccccgaa caccacacc ttcaacccc gtggacccc 
        cacgaagtc actcaaccg gaatttctc aacaatttc 
        ggactcgtc acgcacgat gtgtacaag gaaatgcaa 
        aataaacga gttgagagg aaacggcgg agcactgct 
        aacccccat ttcctctac gggaataaa ggctgggac 
        ttccaaccg aaaagaaaa cgtaacgcg tatttgtat 
        tcgtcgatt tcgccccca aatacgcgc caagccgtc 
        cggaagaag aacgagagg gtgtctcca cccccgact 
        aacggcaat gcgaagttg ccgtttccc caaattccg 
        aatttgccg agtgggctc accatcgaa agggtgagc 
        cccacgagc tcgtcgtct gactccaag acgtgcgtg 
        acttgtaga cagccgggt ttattgacg acttgcgag 
        agttgtagc aatggtttt cacgtcagg tgtcacaac 
        cgccctttg gctcaaccc ccgagacag tgtccccgt 
        tgtattaat aaggaagtg cgcactgtg gggtcccta 
        aacgtgcct tcgggaatg agcgtgtct tacgtgacg 
        ccttccgaa gttgcagaa aaactagag gaaaagaaa 
        aagttggaa aaagttaat aagacactt tcagctgaa 
        ttgacccaa ttgcaggat cggcactcg caattgacg 
        atctcgttg aaacgtcag aagagtcaa caagaagag 
        ttgctgatg acgcaacaa acgactgaa gacaaaatt 
        aagcaaatt ttaactttt attagtaat gttaaaaat 
        gaaattgtt tctaaaccg acacaacct caggctcag 
        acatga
      mRNA sequence
      • >TC008103 RA
        caggtttta atttctggg gttttttcc atcaactcg 
        gggacaatt tgagttgtt tggtagtgt ttggtgatt 
        ttgtggcgt tttgggtga tttttgggg acgttgagg 
        ggtagtttg cgtgtttgg ggcccaatt tattgaatt 
        tagtggtgt ttcggtgtc agcgtccgg cgcactctc 
        attcgttgt tcccggccg agtaaatcc agtgtgtgc 
        acttttgtt gcgaaagta gaaaatttc ttttttgtt 
        aaaagcagc ggtttttaa gtgctcgaa acaggatga 
        aggacttgg aaataagta aagggctca aggacgaga 
        tagaaacca accaaaacc aactgaaaa atgctatcc 
        gtaatcatc agagttttg tcatcagac tgaagcagg 
        accctgaca atgttaatt tgcaaaaag aaatcaaca 
        aggccgaac aggaaataa tcctcgtcg gtatcacac 
        agaaaagtc tcctggaac gcctccgcg aggaataca 
        aagctcatc aaaagtcgc tcaaaacca acattacaa 
        aaactagca tcgaggaga gacgtttta acctgagca 
        cggccctga acagagccc gtaaacaaa acattgtgt 
        ctcgcccca cgtccatct cggtgtcgt cagtctccg 
        acgattcgg tggaggcag cttccgtta attcttccc 
        ccgaacacc acaccttca accccgtgg acccccacg 
        aagtcactc aaccggaat ttctcaaca atttcggac 
        tcgtcacgc acgatgtgt acaaggaaa tgcaaaata 
        aacgagttg agaggaaac ggcggagca ctgctaacc 
        cccatttcc tctacggga ataaaggct gggacttcc 
        aaccgaaaa gaaaacgta acgcgtatt tgtattcgt 
        cgatttcgc ccccaaata cgcgccaag ccgtccgga 
        agaagaacg agagggtgt ctccacccc cgactaacg 
        gcaatgcga agttgccgt ttccccaaa ttccgaatt 
        tgccgagtg ggctcacca tcgaaaggg tgagcccca 
        cgagctcgt cgtctgact ccaagacgt gcgtgactt 
        gtagacagc cgggtttat tgacgactt gcgagagtt 
        gtagcaatg gttttcacg tcaggtgtc acaaccgcc 
        ctttggctc aacccccga gacagtgtc cccgttgta 
        ttaataagg aagtgcgca ctgtggggt ccctaaacg 
        tgccttcgg gaatgagcg tgtcttacg tgacgcctt 
        ccgaagttg cagaaaaac tagaggaaa agaaaaagt 
        tggaaaaag ttaataaga cactttcag ctgaattga 
        cccaattgc aggatcggc actcgcaat tgacgatct 
        cgttgaaac gtcagaaga gtcaacaag aagagttgc 
        tgatgacgc aacaaacga ctgaagaca aaattaagc 
        aaattttaa cttttatta gtaatgtta aaaatgaaa 
        ttgtttcta aaccgacac aacctcagg ctcagacat 
        gaagaagtg tgatcagtt ttgttagca aaatgttat 
        caatattgt taagactga tggtatatt ttgttataa 
        gaatttgta acgaataaa caagaggac cacctttat 
        caatgtttt ttatttcaa cacacaatt tctccaagc 
        taatacatt ttactgtgt tac
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY