Status
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Gene information
General information
TC016311 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_007420.3: 917283..926551
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
    TC016311
    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
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05996

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC016311 RA
      MHLKNWPSW CFLLVLTTL KTEAADDDY NILHRDGSF 
      EFGYDNPNS YHHAAGNRN NVVRGEFGG RNPGTGRID 
      STQYTAGPR GYRPRGKNV HRKFDLNQN GPRPVGSRD 
      DPYFDPYED PSYSFEFKT RTYNRQENA NRVGDVNGR 
      YNFIDDVGE IHNVEYIAG KNIGFHVKT PYPDSNPRA 
      YYGRLYYRG RGKPIPRGR TSIQRGLDG SYRFVSAGP 
      DQRRTETSD SSGHVRGSY TYLDDKGVQ HSVHYIAGP 
      ETGYRVLKN VKGPHLPTI YPFGRPEII PPDFYDYIK 
      DDVFDTAAS GPINNIGGG GSRPNKEEQ PQKPGEEDK 
      GPSVENNDD SFGAPSGAS ERPSSGGDL RPPVGGTRP 
      PRPPPGGDF DDGDGGDDD FEGELFGPS AGGSKPKPS 
      RPTKPSRPF GGSSGGGGV TRPPFGDTS GGGGVTGPP 
      FGAGGSTRP PFQAGGAVR PPRPDDGSY KPDFGDTGD 
      DGSYIPPGD VNQDDGSYK PGLDESEAP RPGLGRPPG 
      GDSYDYDDT NGLFGSESN SRPPLGGGG RPPVIQIQG 
      GGNGGPCER CQGTIVTNV GDKLFSVPP GVSVRAHVQ 
      SIDLLPLVS KVPSPSEQY NEEMSIKTE QLNSAASDV 
      VSSNSTVTE SSKLTTTVT VPTTTTSAG TEATTINE
    CDS sequence
    • >TC016311 RA
      atgcattta aaaaattgg ccttcatgg tgctttctt 
      ttggtactg acgacttta aagaccgaa gctgcggac 
      gatgactac aacattttg cacagagat ggctcgttt 
      gaattcgga tacgacaac ccgaattct taccaccat 
      gctgcaggg aatagaaat aatgtagtc aggggcgaa 
      ttcgggggt agaaaccct ggaacggga cgaatagac 
      tcgactcag tacactgca ggtcctaga ggctataga 
      ccaaggggt aaaaatgtg cacaggaaa tttgatctc 
      aaccagaac ggtccaaga ccagtcggg tcaagagat 
      gacccttat tttgaccct tatgaggac ccaagttac 
      agttttgaa tttaaaact aggacttac aaccgccaa 
      gagaatgcc aatagggtt ggggatgtt aatgggagg 
      tataatttt attgacgat gtgggggaa atacacaat 
      gttgagtac attgcggga aaaaatatc gggtttcat 
      gtcaagaca ccgtatcct gattccaat ccaagggcg 
      tattatgga cgtttgtac tatagaggg agggggaaa 
      cctattcca agagggagg acttctatt caaaggggt 
      ctggatggg agctacaga tttgtttca gctggacct 
      gatcaaaga cgtaccgaa acaagtgat tcatcaggc 
      catgtccgt ggttcctac acatacctc gacgataaa 
      ggcgttcaa cactccgta cactacatt gccggcccg 
      gaaaccggt tatagagtc ctcaaaaac gtaaaagga 
      ccacacctc ccaacaatc tatcctttt ggacgcccc 
      gaaatcatc ccacctgat ttttacgat tacatcaaa 
      gacgatgtc tttgacacc gcagctagt ggccccatc 
      aacaacata ggaggtggt ggttcccga ccaaataaa 
      gaagaacaa ccccaaaaa ccaggagaa gaagacaag 
      ggaccttca gtggaaaat aatgatgac tcgttcggt 
      gcaccatct ggtgcttcg gaacgccca tcttcaggg 
      ggagattta agaccccca gttgggggc acccgccca 
      cctagaccc ccacctggg ggtgatttt gacgatggt 
      gatggagga gatgacgat tttgaaggt gaattattt 
      gggccttct gctggaggt tctaaacct aaaccgtcc 
      cgacctacg aaaccatcg agacctttt ggtggttcc 
      agcggaggt ggaggagtc actagacct ccgtttgga 
      gacaccagt ggaggtggg ggagttact ggacccccc 
      tttggtgct gggggaagt actagacct ccgttccaa 
      gctggagga gctgttcga cctccaaga cctgacgat 
      ggttcctac aagcccgat tttggcgat actggagat 
      gatggttcc tacatacca cctggagat gttaaccag 
      gacgatgga agttacaaa cctgggtta gacgaatcg 
      gaagctcca cgtccaggg cttggacgg cctcctggg 
      ggagattcc tacgactat gatgatacc aacggtttg 
      tttgggagc gagtccaac tcgcgccca cctctgggg 
      ggtggtggg agacctcca gtgatccaa attcaaggt 
      gggggcaat ggagggcct tgtgagaga tgtcaaggc 
      acaattgtt acaaatgtg ggagataag cttttttcg 
      gtacctcct ggagtttct gtaagggct catgtccag 
      tcgattgat ttgttaccg ttagtgtca aaggttcct 
      tcccccagt gagcaatac aatgaggag atgagtatc 
      aaaactgag caactgaat tcagcagct agtgatgtg 
      gttagtagt aacagtact gttacagaa agtagtaaa 
      ttgacaacg accgtaact gtaccaaca actaccaca 
      agtgcaggg acagaagca acaacgatt aacgaataa
    mRNA sequence
    • >TC016311 RA
      ttggagttc agtgtggtt ttggatttt tagcgatgc 
      atttaaaaa attggcctt catggtgct ttcttttgg 
      tactgacga ctttaaaga ccgaagctg cggacgatg 
      actacaaca ttttgcaca gagatggct cgtttgaat 
      tcggatacg acaacccga attcttacc accatgctg 
      cagggaata gaaataatg tagtcaggg gcgaattcg 
      ggggtagaa accctggaa cgggacgaa tagactcga 
      ctcagtaca ctgcaggtc ctagaggct atagaccaa 
      ggggtaaaa atgtgcaca ggaaatttg atctcaacc 
      agaacggtc caagaccag tcgggtcaa gagatgacc 
      cttattttg acccttatg aggacccaa gttacagtt 
      ttgaattta aaactagga cttacaacc gccaagaga 
      atgccaata gggttgggg atgttaatg ggaggtata 
      attttattg acgatgtgg gggaaatac acaatgttg 
      agtacattg cgggaaaaa atatcgggt ttcatgtca 
      agacaccgt atcctgatt ccaatccaa gggcgtatt 
      atggacgtt tgtactata gagggaggg ggaaaccta 
      ttccaagag ggaggactt ctattcaaa ggggtctgg 
      atgggagct acagatttg tttcagctg gacctgatc 
      aaagacgta ccgaaacaa gtgattcat caggccatg 
      tccgtggtt cctacacat acctcgacg ataaaggcg 
      ttcaacact ccgtacact acattgccg gcccggaaa 
      ccggttata gagtcctca aaaacgtaa aaggaccac 
      acctcccaa caatctatc cttttggac gccccgaaa 
      tcatcccac ctgattttt acgattaca tcaaagacg 
      atgtctttg acaccgcag ctagtggcc ccatcaaca 
      acataggag gtggtggtt cccgaccaa ataaagaag 
      aacaacccc aaaaaccag gagaagaag acaagggac 
      cttcagtgg aaaataatg atgactcgt tcggtgcac 
      catctggtg cttcggaac gcccatctt cagggggag 
      atttaagac ccccagttg ggggcaccc gcccaccta 
      gacccccac ctgggggtg attttgacg atggtgatg 
      gaggagatg acgattttg aaggtgaat tatttgggc 
      cttctgctg gaggttcta aacctaaac cgtcccgac 
      ctacgaaac catcgagac cttttggtg gttccagcg 
      gaggtggag gagtcacta gacctccgt ttggagaca 
      ccagtggag gtgggggag ttactggac ccccctttg 
      gtgctgggg gaagtacta gacctccgt tccaagctg 
      gaggagctg ttcgacctc caagacctg acgatggtt 
      cctacaagc ccgattttg gcgatactg gagatgatg 
      gttcctaca taccacctg gagatgtta accaggacg 
      atggaagtt acaaacctg ggttagacg aatcggaag 
      ctccacgtc cagggcttg gacggcctc ctgggggag 
      attcctacg actatgatg ataccaacg gtttgtttg 
      ggagcgagt ccaactcgc gcccacctc tggggggtg 
      gtgggagac ctccagtga tccaaattc aaggtgggg 
      gcaatggag ggccttgtg agagatgtc aaggcacaa 
      ttgttacaa atgtgggag ataagcttt tttcggtac 
      ctcctggag tttctgtaa gggctcatg tccagtcga 
      ttgatttgt taccgttag tgtcaaagg ttccttccc 
      ccagtgagc aatacaatg aggagatga gtatcaaaa 
      ctgagcaac tgaattcag cagctagtg atgtggtta 
      gtagtaaca gtactgtta cagaaagta gtaaattga 
      caacgaccg taactgtac caacaacta ccacaagtg 
      cagggacag aagcaacaa cgattaacg aataattta 
      tttaaataa ttatatatt tttgtaata tattgtatc 
      tgattacaa gtactaata aagctgttt tttaaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY