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Gene information
General information
TC013739 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: 4974961..4992256
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
    TC013739
    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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    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_08236

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


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


    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): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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%
    cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - 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: % (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
    • >TC013739 RA
      MGICLDTEQ SDGSQAFEE GQDTWVQNT PRRAEPGST 
      TPPTGKLPM QNDTDVQFE SPKVPVIFV LGGPGSGKV 
      THCDSLMQE KKGITHINM TDLLQQYAI GNDMQDFGL 
      LSSKTVTEV LMLEMKMAP TAKTYLVSG FPRNMRDVV 
      EYSEKIQML SGAIMISWR QKVLERQID YGAKLGQVV 
      LSLARMELN NFYKNVMPV ADYFDQSNM LISINGERH 
      PSNVYKDFR AAVFKILGM QDNPPVFTN GKVATVPSD 
      VTTELPTMQ ALPPAHVQN HEPERPKTQ VISVTTNNQ 
      HNYQSPVKA GWPPVLWVI GGPGSNKAA LCSQAAKDT 
      RWTHISLGK LLRAAAEPP DPRHNSETA KIRESISAG 
      ELVPLNVVM KFVESHMAA NMAAPGIIL DGFPRDMTQ 
      ATEFEAKFK QKPSIVLLD CSKLQLGRG RLDDSVTAF 
      RRRLEIFRQ SSLPMLKTM DNIGRLTIV DGDTDTAPV 
      QDDFKGVVK EHIEYIKRQ QQEPAAANG FANGHVPNG 
      EATLQDLEA EPIETISKH VGNGVAHSL ANGVRTMAN 
      GYTNGHIPN GYARDLPQY TSFDGPDNR QMYNEVNYM 
      DGHI
    CDS sequence
    • >TC013739 RA
      atgggaatc tgcttggat acagagcaa agtgatggt 
      tctcaagct ttcgaagaa gggcaggac acttgggtg 
      cagaacacg ccacgaaga gccgaaccg ggctccaca 
      acaccacca accggaaaa ctaccaatg caaaacgac 
      acagacgtg cagtttgaa tcgccaaaa gtgccggtt 
      atatttgtt ctcgggggc cctggcagc ggcaaggtg 
      actcactgt gacagcctt atgcaagaa aagaaaggc 
      ataacacac atcaacatg actgacctc ctccaacaa 
      tacgccatc ggcaacgat atgcaagat ttcgggctg 
      ttgtcgagt aagaccgtc accgaagtg ctcatgctt 
      gagatgaag atggcgcca acggccaag acgtatctc 
      gtctcgggg tttcccagg aacatgagg gacgtcgtc 
      gagtattcg gaaaagatc cagatgtta agcggtgcg 
      attatgatc tcttggcgg caaaaagtt ctggaacga 
      caaatcgat tacggtgcc aaattaggt caagtggtt 
      ttatcattg gccagaatg gaactcaac aatttttac 
      aagaatgtg atgccagta gccgactat ttcgaccaa 
      agcaatatg ctaatatcg ataaacggc gaacgccat 
      ccttctaac gtctacaag gactttcga gcagcagta 
      ttcaaaatt ctcggaatg caagacaac cctccagta 
      ttcacaaac ggcaaagtg gccaccgtc ccatcggac 
      gtcaccacc gaacttcca acaatgcaa gcgttacct 
      ccggcccat gtgcaaaac cacgagccc gaaaggccc 
      aaaacccag gtgatatca gtgaccacc aacaaccag 
      cataattac cagtcgcct gttaaggcc ggctggccc 
      cccgttttg tgggtaatt ggaggcccg gggagcaac 
      aaggcggct ctgtgctcg caagcggcc aaagacacc 
      aggtggact cacatcagt ctggggaag ctgctcaga 
      gccgcagct gaacccccg gatccgaga cacaacagc 
      gaaacggcc aaaattaga gagagcata agtgcagga 
      gagctggtg cctttgaac gtcgtgatg aagttcgtg 
      gagtcgcat atggcggcc aatatggcg gcgccggga 
      atcatcctt gacgggttc ccgagggac atgacccag 
      gccaccgag tttgaagct aagttcaag cagaagccg 
      tcgatagtc ctcctggac tgctcgaag ctccagctc 
      gggcgaggg cgcctggac gacagcgtg acagctttc 
      aggcgtcgt ttggagatt ttcaggcag tcgtcattg 
      ccgatgctg aaaaccatg gacaatatc gggcgactg 
      acgatcgtg gacggggac acggacacg gcccccgtc 
      caggacgac ttcaagggt gtggtgaaa gagcacatc 
      gagtacatc aagcgccag cagcaggag ccggcggcc 
      gccaacggc ttcgccaac gggcacgtg cccaacgga 
      gaggccact ctccaggac ctggaggcc gaacccatc 
      gagaccatc agcaagcac gtgggcaac ggcgtcgcc 
      cactcgctg gccaacggg gtgcgcacc atggccaat 
      gggtacacc aatgggcac atacccaac gggtacgcc 
      cgcgatttg ccgcagtac accagcttc gatgggcct 
      gataataga cagatgtac aacgaagtt aactacatg 
      gatggacac atttag
    mRNA sequence
    • >TC013739 RA
      cgcgaagaa ctttcgttg acggttcat tcaacattt 
      tgctgaaaa ctgatttag cggtgatgg caaagtgaa 
      ctgaaacca tgtagtgac aaaaatgaa tttattccc 
      tcgtaaaga ctcaaaaga gtggattaa aaacgatct 
      cgcgagctc catgaataa atcgcaaac gtttacgcg 
      gcatccgcg tcattctgg cgacttact aaaaacata 
      ccaaactat tttttcgag gatataata tgggaatct 
      gcttggata cagagcaaa gtgatggtt ctcaagctt 
      tcgaagaag ggcaggaca cttgggtgc agaacacgc 
      cacgaagag ccgaaccgg gctccacaa caccaccaa 
      ccggaaaac taccaatgc aaaacgaca cagacgtgc 
      agtttgaat cgccaaaag tgccggtta tatttgttc 
      tcgggggcc ctggcagcg gcaaggtga ctcactgtg 
      acagcctta tgcaagaaa agaaaggca taacacaca 
      tcaacatga ctgacctcc tccaacaat acgccatcg 
      gcaacgata tgcaagatt tcgggctgt tgtcgagta 
      agaccgtca ccgaagtgc tcatgcttg agatgaaga 
      tggcgccaa cggccaaga cgtatctcg tctcggggt 
      ttcccagga acatgaggg acgtcgtcg agtattcgg 
      aaaagatcc agatgttaa gcggtgcga ttatgatct 
      cttggcggc aaaaagttc tggaacgac aaatcgatt 
      acggtgcca aattaggtc aagtggttt tatcattgg 
      ccagaatgg aactcaaca atttttaca agaatgtga 
      tgccagtag ccgactatt tcgaccaaa gcaatatgc 
      taatatcga taaacggcg aacgccatc cttctaacg 
      tctacaagg actttcgag cagcagtat tcaaaattc 
      tcggaatgc aagacaacc ctccagtat tcacaaacg 
      gcaaagtgg ccaccgtcc catcggacg tcaccaccg 
      aacttccaa caatgcaag cgttacctc cggcccatg 
      tgcaaaacc acgagcccg aaaggccca aaacccagg 
      tgatatcag tgaccacca acaaccagc ataattacc 
      agtcgcctg ttaaggccg gctggcccc ccgttttgt 
      gggtaattg gaggcccgg ggagcaaca aggcggctc 
      tgtgctcgc aagcggcca aagacacca ggtggactc 
      acatcagtc tggggaagc tgctcagag ccgcagctg 
      aacccccgg atccgagac acaacagcg aaacggcca 
      aaattagag agagcataa gtgcaggag agctggtgc 
      ctttgaacg tcgtgatga agttcgtgg agtcgcata 
      tggcggcca atatggcgg cgccgggaa tcatccttg 
      acgggttcc cgagggaca tgacccagg ccaccgagt 
      ttgaagcta agttcaagc agaagccgt cgatagtcc 
      tcctggact gctcgaagc tccagctcg ggcgagggc 
      gcctggacg acagcgtga cagctttca ggcgtcgtt 
      tggagattt tcaggcagt cgtcattgc cgatgctga 
      aaaccatgg acaatatcg ggcgactga cgatcgtgg 
      acggggaca cggacacgg cccccgtcc aggacgact 
      tcaagggtg tggtgaaag agcacatcg agtacatca 
      agcgccagc agcaggagc cggcggccg ccaacggct 
      tcgccaacg ggcacgtgc ccaacggag aggccactc 
      tccaggacc tggaggccg aacccatcg agaccatca 
      gcaagcacg tgggcaacg gcgtcgccc actcgctgg 
      ccaacgggg tgcgcacca tggccaatg ggtacacca 
      atgggcaca tacccaacg ggtacgccc gcgatttgc 
      cgcagtaca ccagcttcg atgggcctg ataatagac 
      agatgtaca acgaagtta actacatgg atggacaca 
      tttagtgat ctgatttgt gataatacg aggacatgt 
      tacctacaa gtattatgt gggtagttt ttagttgta 
      gtttaggtg tgctcaagt gtgccttat gacgggaag 
      gttcaacga ttgatggaa ggttttatg atgggatcc 
      aacagtatt ctctagatt tttaagcag caattttgt 
      atagtaatt aaacacaaa ttatttaat aatgttttt 
      actgaaaag accgctggt cggttctat tataagtga 
      ataagtggc aaacatttg agattctat aagatagta 
      gcacgaaaa tcacagcac gaaataaac acaaaaata 
      ttttcaagt gtcgagtag cattttcat cctgtcgat 
      gtttaaatt atttgcatt acttaacta attgtattt 
      tttcgaaaa gtaaagata ggtgattat gctacatat 
      agactgaca aatattttt tgtaaaata aggatttgt 
      gattacctc aaaattata attataaaa cctgtttct 
      taatcaaag atccaaaaa tattactgg attttaatt 
      tatttactt tatactgaa tcgattttt cgctgtcag 
      gaaaaaaca acatatcaa taagtttgg ttctttata 
      aaagaaaat caaaattaa agtacctat atttgt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY