Status
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Gene information
General information
TC013341 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: 10908573..10910994
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
    TC013341
    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
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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_02114

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (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 with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    with embryonic tissue, no cuticle, no fluorescence - 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%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen bristle ventral pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    egg production: number <50% of expected -
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 1
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 2
    ovary without detectable defects - Number of animals showing the phenotype: 1
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013341 RA
      MEAPDCETS SLDEETSSL LNNGSSGDC EKGSQLNDF 
      DDNEDTRSE LKFDRDLET DAERKKRAL IEEALSNNN 
      STLKTYQEL AIDEFGLVG DDLRCKVWP LLLELDPNN 
      LEKTPLLEE LSSHSEYEQ VVLDVNRSL KRFPPGIPY 
      KQRLALQDQ LTVLILRVI IKYPHLRYY QGYHDVAIT 
      FLLVVGEAL GFSIMERLS TDHLRECME PTMEKTSYR 
      LTYIYPLLS RVDPQLYEF MDRATVGTM FALPWFLTW 
      FGHSLNQYK DVVRLYDFF LATPPLMPL YVAAALVVE 
      RREEVFEQG CDMASIHCL LSQIPDNLD FEAILRRAL 
      TYYKNHPPH KLEGDVKKR VKKEAEQRK KEEMRVRKR 
      LNRNNTLWV RFSNRMPTW LLFNYRSRY GLLFATATV 
      LLGYYAYYL KTTNASHSF FGIFNT
    CDS sequence
    • >TC013341 RA
      atggaggcc ccggactgc gagacgagc agcctagac 
      gaggaaaca tcctctctg ctcaataac ggatcatcg 
      ggtgattgt gaaaagggc tcccagttg aatgatttt 
      gacgataac gaagacacc cggtcggaa ttaaaattt 
      gatcgagat ctggaaacg gacgcggaa cgcaaaaaa 
      cgcgccttg attgaggaa gctctgagt aacaataat 
      tcgacgttg aaaacgtac caagagctg gcaattgac 
      gagtttggg ctagtcggc gacgacttg cggtgcaaa 
      gtgtggccg ctgttgctc gaactggac cccaataat 
      ttggaaaag accccgctt ttggaggag ctgtccagt 
      catagtgag tacgagcaa gttgtcctg gacgtgaac 
      cgctccctc aagcggttc ccccctggc attccatac 
      aagcagcgg ctggcgttg caagaccag ctcactgtc 
      ttgatattg agggtgatc atcaagtac ccccatctg 
      cggtactac cagggctac catgacgtc gccatcacg 
      tttttgctg gtggtgggc gaagccctg ggcttcagc 
      atcatggag cgcctcagc accgaccat ctgcgcgag 
      tgcatggag cccactatg gagaagact tcatataga 
      ctgacctac atctacccc cttctgagc cgggtcgac 
      ccccagctg tacgagttc atggacagg gcaacggtc 
      gggacgatg ttcgccctg ccgtggttc ctgacctgg 
      ttcgggcac tcgctcaac cagtacaag gacgtggtg 
      cggctgtac gacttcttc ttggcgact ccgcccctg 
      atgcccctt tacgtggcg gcggccctg gtggtggag 
      cgccgtgag gaggtgttc gagcagggc tgtgacatg 
      gccagcatc cactgcctc ctctcgcaa atccccgac 
      aatttggat tttgaggcg atcttgagg cgggcgctc 
      acctactac aagaaccat cctccgcac aagctggag 
      ggcgacgtg aagaagcgg gtgaagaaa gaagctgag 
      cagcggaag aaagaagaa atgagggtg aggaaaagg 
      ctaaacagg aataacacc ctttgggtg aggtttagt 
      aacaggatg cccacgtgg ttgcttttc aattaccga 
      agtcggtat ggattgctg ttcgccaca gcgacggtt 
      ttgctggga tattatgca tattatctg aaaaccacg 
      aatgcttca cacagtttt ttcggtatt tttaataca 
      tga
    mRNA sequence
    • >TC013341 RA
      acccgtttt tgacaattg tcagctgtc aagtgtcat 
      tattgaggt tataatcaa aaatttcgt acttttccg 
      ctttgtaaa tgtaaatcc acataaagc atcgaaaaa 
      acagtgatt ccaatcacg atggaggcc ccggactgc 
      gagacgagc agcctagac gaggaaaca tcctctctg 
      ctcaataac ggatcatcg ggtgattgt gaaaagggc 
      tcccagttg aatgatttt gacgataac gaagacacc 
      cggtcggaa ttaaaattt gatcgagat ctggaaacg 
      gacgcggaa cgcaaaaaa cgcgccttg attgaggaa 
      gctctgagt aacaataat tcgacgttg aaaacgtac 
      caagagctg gcaattgac gagtttggg ctagtcggc 
      gacgacttg cggtgcaaa gtgtggccg ctgttgctc 
      gaactggac cccaataat ttggaaaag accccgctt 
      ttggaggag ctgtccagt catagtgag tacgagcaa 
      gttgtcctg gacgtgaac cgctccctc aagcggttc 
      ccccctggc attccatac aagcagcgg ctggcgttg 
      caagaccag ctcactgtc ttgatattg agggtgatc 
      atcaagtac ccccatctg cggtactac cagggctac 
      catgacgtc gccatcacg tttttgctg gtggtgggc 
      gaagccctg ggcttcagc atcatggag cgcctcagc 
      accgaccat ctgcgcgag tgcatggag cccactatg 
      gagaagact tcatataga ctgacctac atctacccc 
      cttctgagc cgggtcgac ccccagctg tacgagttc 
      atggacagg gcaacggtc gggacgatg ttcgccctg 
      ccgtggttc ctgacctgg ttcgggcac tcgctcaac 
      cagtacaag gacgtggtg cggctgtac gacttcttc 
      ttggcgact ccgcccctg atgcccctt tacgtggcg 
      gcggccctg gtggtggag cgccgtgag gaggtgttc 
      gagcagggc tgtgacatg gccagcatc cactgcctc 
      ctctcgcaa atccccgac aatttggat tttgaggcg 
      atcttgagg cgggcgctc acctactac aagaaccat 
      cctccgcac aagctggag ggcgacgtg aagaagcgg 
      gtgaagaaa gaagctgag cagcggaag aaagaagaa 
      atgagggtg aggaaaagg ctaaacagg aataacacc 
      ctttgggtg aggtttagt aacaggatg cccacgtgg 
      ttgcttttc aattaccga agtcggtat ggattgctg 
      ttcgccaca gcgacggtt ttgctggga tattatgca 
      tattatctg aaaaccacg aatgcttca cacagtttt 
      ttcggtatt tttaataca tgacattta attacagtg 
      ggacccata aagacgatg atgcataac aggttttat 
      acgagcttc tagtttatt tatttatta tttttaaag 
      tcagtaatc gttccaact gttgtttat cacaaatgt 
      atacataaa gtttattca accacgaaa tgatcgcta 
      ccaaggtca taactactg tacacttct tgtaaataa 
      gaggcttct agggattgt tactttttc agcaaatct 
      atgatgtac atactacag atgaggagg caaatatac 
      cgaaataaa atggatgag attctagca tatgccaaa 
      aattattat cagtgtgat atttatttt caattccag 
      ttgtttatt tttatatac ggtgcgttc ggacgtccg 
      ctttttatg ttgtgttat aggagaaaa tacaggcag 
      tatttttat attttgtta tgtgaatgt aagtgtaat 
      taagtgcaa tcttttgta ttagtttaa ggtgtataa 
      agaggtcaa taaagtttt tactaaaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY