Status
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Gene information
General information
TC000164 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: 15179795..15183829
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
    TC000164
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02987

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 4 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 3
    ovary without detectable defects - Number of animals showing the phenotype: 1
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    antenna shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC000164 RA
      MNTGSTQDI VIEVLQRAS SQNPEVLKP AEAKLREWE 
      TQPGFYTVL FNVLSNHSL DINVRWIAV LYIKNGIER 
      YWRKNAPNA ILEAEKQNI KHGLILSFN EPVSQIAVQ 
      RAVLISKIA RIDCPKEWP ELFPTLLQV IESPDSLVQ 
      HRGFLTLHH VVKAIASKR LTGDRRFFQ EFSSNIYSF 
      VLNLWNNFT EQFMNDVMK GAASQLVLT NLEKALLTL 
      RILRKLTVF GFYKPHQNQ DCMKFLKVI FDRAKMALQ 
      CRKHLRDKE LVEQCEKFI THLTKVLIS VLDVHPFSF 
      IDFIQPSFE FTTYFLFTP DGINFLFER FIIQCFNLI 
      KNILLCVEY KPPKILEMC KQEETLKAH EIKINFFQA 
      NTLTEICRK LVSHYFILT QEELEMWDA DPETFAIDE 
      SGDSWKYSL RPCMETVFV TIFHEFRDA LAPVLLEMI 
      HETNCIVLP EDTQGILRK DAVYNAVNL AAYDLYDEV 
      DFDSWFTNT LTHELKMKQ NNYRVIRRR VCALIGRWT 
      GIKLSSELR PALYECVIN LLGPDEDMA VRLTASATL 
      RYAIDDFEF SSDQFRDYL DPAFNLLFN LLKEANECE 
      TKMHVLNVM TLMVERVGQ TIKPHTDAL IHYLPLLWT 
      ESEDHNMLR CAIVSTLVQ LVKALGSVS SELNPFLLP 
      IIQLGTDTN QSAIVYLLE DCLELWLTV LENSTTMSN 
      ELLQLFNNM PTLLEYSTE NLRLCLLIV LVHTLLAPD 
      LVMRTHGVQ VITVCDNLM ADMKNEGIV MLIRMLEIF 
      IRSSPILGC ETVFPILPR IFQKIYEGE DYPLLMSMY 
      LSILARVLL SSHDVFTRV LRTLAQVHN ETDENVLGK 
      ILNVWLSKM PMVSQLEQR KLLGLALTN LLTTQSRPV 
      FQRFATVMV NILECLNDM EDSLLLSDG RSPSDYDDV 
      VPYETDHDQ RKKQLILSD PVHTIVLKD YLQSQMYEL 
      RNQIGLPQY EQLLQTVDP DTISQLKGY ITL
    CDS sequence
    • >TC000164 RA
      atgaatacg ggatcaaca caagacatc gtaattgaa 
      gttctgcaa agagcctcg agtcaaaat ccagaagtg 
      ttaaaaccg gctgaagcc aaattacgg gaatgggaa 
      actcaacct ggattttac acagtttta tttaatgtt 
      ttatctaac cactcgctt gatataaac gtacggtgg 
      attgcagtt ttgtatata aaaaatggt attgaacga 
      tattggaga aaaaacgca ccaaacgct attttagag 
      gcagaaaaa caaaacatt aaacacggt ttaatttta 
      agttttaac gaacccgtt agtcagatt gcggtacaa 
      agagcggtt ttaatttcg aaaattgca cgaattgat 
      tgtccgaaa gagtggccc gaattattt ccgacttta 
      ctacaagta attgaaagt cctgattct ctagtccaa 
      catcgagga tttttaact cttcatcat gtagttaaa 
      gccattgct tcgaaacgg ttaacaggc gatcgccgt 
      tttttccaa gagttttcc agtaatatt tattcgttt 
      gtgttgaat ttatggaat aatttcacc gaacaattt 
      atgaatgat gtaatgaaa ggcgcagct tcgcaacta 
      gttcttaca aatttggaa aaagcacta ttgactttg 
      aggatttta cgcaaattg actgttttt ggtttttat 
      aaaccgcat caaaaccag gattgtatg aagtttttg 
      aaagtgatt tttgatcgc gctaaaatg gcactgcaa 
      tgcaggaaa catttgagg gataaagaa ctggtggaa 
      caatgcgaa aaattcatt acacactta acgaaagtt 
      ttaatatcc gtcttggac gtacatcca ttttcattc 
      attgatttc attcaacct tcgttcgaa tttactact 
      tattttctt ttcactcct gatggaatt aatttcttg 
      tttgaacgc ttcattatt cagtgtttt aatttaatt 
      aaaaatatt ctcttgtgt gtggaatat aaaccgccg 
      aaaattctc gaaatgtgt aaacaggag gaaacactt 
      aaagcgcac gagatcaaa attaatttt tttcaagcc 
      aatacttta accgaaatt tgccgaaaa ttggtctcg 
      cattatttt attttgaca caagaagag ttggaaatg 
      tgggatgct gatccagaa acgtttgcg attgatgaa 
      agtggtgat agttggaag tatagtttg aggccttgt 
      atggaaact gttttcgtg acaattttt cacgaattt 
      cgggacgct ttagctccg gttttgctt gaaatgatt 
      catgaaacc aactgtatt gttttaccc gaagacact 
      caaggaata ttacgtaaa gacgcagtc tataatgca 
      gttaacttg gccgcttat gatctttat gacgaggtc 
      gatttcgat tcatggttc accaacaca ttaactcat 
      gagcttaaa atgaaacag aacaattac cgtgtgatt 
      cggcgaaga gtttgcgcc ttaatcggc cgttggact 
      ggcataaaa ttatcatcg gaattacgt ccagcttta 
      tacgaatgt gtgattaat ttattaggt cctgacgaa 
      gacatggct gttcgctta acagcctct gcaacacta 
      cgatacgct attgatgat tttgagttc agttccgat 
      caatttcgt gattattta gacccagca tttaactta 
      ttgtttaat ctgttgaaa gaagcgaac gaatgcgag 
      acaaaaatg cacgttttg aacgtaatg accctaatg 
      gtggagaga gtaggacag actattaaa ccacacact 
      gatgcattg attcattat ttgccattg ttgtggacc 
      gaatctgaa gatcataat atgttgaga tgtgcgatt 
      gtttcgact ttggttcaa ttggtcaaa gctttgggg 
      tcggttagt tcagaattg aacccgttt ttattaccg 
      attatacaa ttaggcact gatacgaat caaagtgct 
      attgtttat ctcttggag gattgtctc gagttgtgg 
      ttgactgtg ttggaaaat tctacaact atgtcaaac 
      gagcttttg caactattt aacaatatg ccaacttta 
      ttggaatat tcaactgag aacttaaga ctttgccta 
      ttgattgtg ttggttcac actttgttg gcgccagat 
      cttgtcatg cgaacacac ggagttcaa gtgattaca 
      gtttgtgat aatttaatg gccgatatg aaaaatgaa 
      ggcattgta atgttgatc cgaatgttg gaaattttt 
      attcgatcg tcaccgatt ctaggctgc gagactgtt 
      ttccccatt ttaccacgt atattccaa aaaatctac 
      gagggtgag gattatcct ctcttaatg tcaatgtac 
      ctgtctata ctggcacgt gttttgctt tcctcgcat 
      gatgttttt acacgtgtt ttgcgcacg ttggctcaa 
      gttcataat gaaacggac gaaaatgtc cttggaaaa 
      attttaaat gtttggtta tcgaaaatg ccaatggtg 
      tctcaatta gaacagcgc aaacttttg ggtctagcg 
      ttgacgaat ttattgacc actcaaagt cggccagtg 
      tttcagaga tttgcaaca gttatggtc aatattttg 
      gagtgtttg aacgatatg gaagattca cttttgttg 
      tcggatggt cgtagtccg agtgattat gatgatgtt 
      gtgccgtat gaaaccgat catgatcaa aggaagaaa 
      caattgatt ttgtcggat ccagtgcat acgatagtt 
      ttgaaagat tatttgcaa tcacaaatg tatgaactt 
      aggaatcag attgggtta cctcagtat gaacaactg 
      ctacaaaca gttgatcct gatactatt tcacaattg 
      aaggggtat attacgttg tga
    mRNA sequence
    • >TC000164 RA
      tgaaacatg tcatatgtg ttttgacaa ttgataatt 
      ttatttaag aaaaaataa ttgtataat accggtcag 
      ggggaaatg attataatt cacaatgaa tacgggatc 
      aacacaaga catcgtaat tgaagttct gcaaagagc 
      ctcgagtca aaatccaga agtgttaaa accggctga 
      agccaaatt acgggaatg ggaaactca acctggatt 
      ttacacagt tttatttaa tgttttatc taaccactc 
      gcttgatat aaacgtacg gtggattgc agttttgta 
      tataaaaaa tggtattga acgatattg gagaaaaaa 
      cgcaccaaa cgctatttt agaggcaga aaaacaaaa 
      cattaaaca cggtttaat tttaagttt taacgaacc 
      cgttagtca gattgcggt acaaagagc ggttttaat 
      ttcgaaaat tgcacgaat tgattgtcc gaaagagtg 
      gcccgaatt atttccgac tttactaca agtaattga 
      aagtcctga ttctctagt ccaacatcg aggattttt 
      aactcttca tcatgtagt taaagccat tgcttcgaa 
      acggttaac aggcgatcg ccgtttttt ccaagagtt 
      ttccagtaa tatttattc gtttgtgtt gaatttatg 
      gaataattt caccgaaca atttatgaa tgatgtaat 
      gaaaggcgc agcttcgca actagttct tacaaattt 
      ggaaaaagc actattgac tttgaggat tttacgcaa 
      attgactgt ttttggttt ttataaacc gcatcaaaa 
      ccaggattg tatgaagtt tttgaaagt gatttttga 
      tcgcgctaa aatggcact gcaatgcag gaaacattt 
      gagggataa agaactggt ggaacaatg cgaaaaatt 
      cattacaca cttaacgaa agttttaat atccgtctt 
      ggacgtaca tccattttc attcattga tttcattca 
      accttcgtt cgaatttac tacttattt tcttttcac 
      tcctgatgg aattaattt cttgtttga acgcttcat 
      tattcagtg ttttaattt aattaaaaa tattctctt 
      gtgtgtgga atataaacc gccgaaaat tctcgaaat 
      gtgtaaaca ggaggaaac acttaaagc gcacgagat 
      caaaattaa tttttttca agccaatac tttaaccga 
      aatttgccg aaaattggt ctcgcatta ttttatttt 
      gacacaaga agagttgga aatgtggga tgctgatcc 
      agaaacgtt tgcgattga tgaaagtgg tgatagttg 
      gaagtatag tttgaggcc ttgtatgga aactgtttt 
      cgtgacaat ttttcacga atttcggga cgctttagc 
      tccggtttt gcttgaaat gattcatga aaccaactg 
      tattgtttt acccgaaga cactcaagg aatattacg 
      taaagacgc agtctataa tgcagttaa cttggccgc 
      ttatgatct ttatgacga ggtcgattt cgattcatg 
      gttcaccaa cacattaac tcatgagct taaaatgaa 
      acagaacaa ttaccgtgt gattcggcg aagagtttg 
      cgccttaat cggccgttg gactggcat aaaattatc 
      atcggaatt acgtccagc tttatacga atgtgtgat 
      taatttatt aggtcctga cgaagacat ggctgttcg 
      cttaacagc ctctgcaac actacgata cgctattga 
      tgattttga gttcagttc cgatcaatt tcgtgatta 
      tttagaccc agcatttaa cttattgtt taatctgtt 
      gaaagaagc gaacgaatg cgagacaaa aatgcacgt 
      tttgaacgt aatgaccct aatggtgga gagagtagg 
      acagactat taaaccaca cactgatgc attgattca 
      ttatttgcc attgttgtg gaccgaatc tgaagatca 
      taatatgtt gagatgtgc gattgtttc gactttggt 
      tcaattggt caaagcttt ggggtcggt tagttcaga 
      attgaaccc gtttttatt accgattat acaattagg 
      cactgatac gaatcaaag tgctattgt ttatctctt 
      ggaggattg tctcgagtt gtggttgac tgtgttgga 
      aaattctac aactatgtc aaacgagct tttgcaact 
      atttaacaa tatgccaac tttattgga atattcaac 
      tgagaactt aagactttg cctattgat tgtgttggt 
      tcacacttt gttggcgcc agatcttgt catgcgaac 
      acacggagt tcaagtgat tacagtttg tgataattt 
      aatggccga tatgaaaaa tgaaggcat tgtaatgtt 
      gatccgaat gttggaaat ttttattcg atcgtcacc 
      gattctagg ctgcgagac tgttttccc cattttacc 
      acgtatatt ccaaaaaat ctacgaggg tgaggatta 
      tcctctctt aatgtcaat gtacctgtc tatactggc 
      acgtgtttt gctttcctc gcatgatgt ttttacacg 
      tgttttgcg cacgttggc tcaagttca taatgaaac 
      ggacgaaaa tgtccttgg aaaaatttt aaatgtttg 
      gttatcgaa aatgccaat ggtgtctca attagaaca 
      gcgcaaact tttgggtct agcgttgac gaatttatt 
      gaccactca aagtcggcc agtgtttca gagatttgc 
      aacagttat ggtcaatat tttggagtg tttgaacga 
      tatggaaga ttcactttt gttgtcgga tggtcgtag 
      tccgagtga ttatgatga tgttgtgcc gtatgaaac 
      cgatcatga tcaaaggaa gaaacaatt gattttgtc 
      ggatccagt gcatacgat agttttgaa agattattt 
      gcaatcaca aatgtatga acttaggaa tcagattgg 
      gttacctca gtatgaaca actgctaca aacagttga 
      tcctgatac tatttcaca attgaaggg gtatattac 
      gttgtgaga atgacaaaa tgaaattct atctttagc 
      aatatctta ttatttttg ttatatttt tgtaacata 
      cctagttgt ataataatc gtttctttt agtccttat 
      tcaaatgaa tttcattct aattattta ttgaataca 
      tcgcttagt tattatgat tccgaaatt gatttgaaa 
      cctacatat tgtatatga ttgtaccaa ataagatat 
      aataaaaac tgttacaat ca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY