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Gene information
General information
TC003320 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_007418.3: 1219577..1221932
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
    TC003320
    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
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    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_06887

    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: 3 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head capsule structure irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head appendages random 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%

    legs podomer structure irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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
    • >TC003320 RA
      MERQGSNKN KAKNWLHRF LKLKNRFQE RSDFDSDVY 
      TKQGFEPPE SKSHRSSFR RSLKKMHTR VKSCMFSQE 
      NATPKRPVT ISEVPCTSR IPEATIPVA EIYEHSNCA 
      LLGGSTPPP IPVRVPEAP VEMRTHRIP TDEIISLSN 
      CYWYWGPMP TAEAEEKLQ FKPDGTFLV RDSGSTNYL 
      FSISFRSVG KTMHARIEY SRGRYNLCG TYAEGFTTV 
      TELIQDAMK TSENGIYCY SRRGEQAYE FPVRLTKPI 
      SRYEEVRSL KHLCKFVIR QYTNMNDIP KLPLPTVLH 
      GYLLEKPYF
    CDS sequence
    • >TC003320 RA
      atggagcga caggggagc aacaagaat aaggccaaa 
      aattggctg caccgcttc ctgaagctg aaaaaccgc 
      ttccaggag cgatcagac ttcgactcc gacgtgtac 
      acaaaacag gggttcgag ccccccgag tcgaagtcc 
      cacaggagc agtttccgg agaagcctc aagaagatg 
      cacacccga gtgaaaagc tgcatgttt tcgcaggaa 
      aacgcaacc ccgaaacgt ccagtgacc attagtgag 
      gtcccctgc acttcgaga attccagaa gccacgatt 
      cccgtcgct gaaatttac gaacattcg aactgtgcg 
      cttttgggg ggctccacg ccgccgccg atccccgtg 
      cgcgtgccg gaggctcct gtggaaatg cgcacccac 
      cgaataccc acagacgag attattagt ctttcgaac 
      tgttactgg tactggggg cccatgccc accgccgaa 
      gccgaggag aagttgcag tttaaaccc gatggcacg 
      tttctagtc cgcgattcg gggtcaacc aattacttg 
      tttagtatt agttttcgc agtgtagga aagacaatg 
      catgctagg attgagtat agtagaggg aggtacaat 
      ctgtgtggt acctatgct gagggattt acaacagtg 
      accgagttg attcaagat gcgatgaaa acgtccgaa 
      aatggaatt tattgctac tcgcgaagg ggtgaacaa 
      gcgtacgag tttcctgtt agactgact aagccaatt 
      tcgaggtat gaagaagtg aggtcgctt aaacatttg 
      tgcaagttt gttataagg caatatact aatatgaat 
      gatataccg aaactgcct ttgcccact gtgcttcac 
      ggctatttg ttggagaaa ccgtatttt taa
    mRNA sequence
    • >TC003320 RA
      gcggtaata attatttaa ttcggtatt gacggtatg 
      gaagtggtc aaggttcca gtttgacag cgatttgac 
      gtggttttg acagttgat aatttgcaa taatcgtga 
      taaatgata acaaaaaga gtactatca gttgttcct 
      tggcgtaat ttccaacat ttcaacaat gggtgatca 
      ctgtgtaca acgtgatta aagtagtga gtgattaac 
      ccaagatat ggagcgaca ggggagcaa caagaataa 
      ggccaaaaa ttggctgca ccgcttcct gaagctgaa 
      aaaccgctt ccaggagcg atcagactt cgactccga 
      cgtgtacac aaaacaggg gttcgagcc ccccgagtc 
      gaagtccca caggagcag tttccggag aagcctcaa 
      gaagatgca cacccgagt gaaaagctg catgttttc 
      gcaggaaaa cgcaacccc gaaacgtcc agtgaccat 
      tagtgaggt cccctgcac ttcgagaat tccagaagc 
      cacgattcc cgtcgctga aatttacga acattcgaa 
      ctgtgcgct tttgggggg ctccacgcc gccgccgat 
      ccccgtgcg cgtgccgga ggctcctgt ggaaatgcg 
      cacccaccg aatacccac agacgagat tattagtct 
      ttcgaactg ttactggta ctgggggcc catgcccac 
      cgccgaagc cgaggagaa gttgcagtt taaacccga 
      tggcacgtt tctagtccg cgattcggg gtcaaccaa 
      ttacttgtt tagtattag ttttcgcag tgtaggaaa 
      gacaatgca tgctaggat tgagtatag tagagggag 
      gtacaatct gtgtggtac ctatgctga gggatttac 
      aacagtgac cgagttgat tcaagatgc gatgaaaac 
      gtccgaaaa tggaattta ttgctactc gcgaagggg 
      tgaacaagc gtacgagtt tcctgttag actgactaa 
      gccaatttc gaggtatga agaagtgag gtcgcttaa 
      acatttgtg caagtttgt tataaggca atatactaa 
      tatgaatga tataccgaa actgccttt gcccactgt 
      gcttcacgg ctatttgtt ggagaaacc gtattttta 
      attcgatgc atttgtact tattgttgg gatttattc 
      agttgtctt ccaagattt gactttgtt ttcttggtt 
      ttgaaccgc tgagcggct tttttctat ttattaaat 
      gattgctcc gtccgctca aatgttgaa taaatccaa 
      ccagttttt agttacgta ggaataaat tacttatca 
      attgcattt tgtaatgac atttttaga ggtataata 
      ctaccgtgt ccaagtttg attaatgtc gtaggtaaa 
      ttgtaaaat caggcgaat ttataaaac tagtaattt 
      gtaaacgac tgggcaaat aataaatga gtgcgactg 
      aaaattata acgcgcaag tcaggattg ttgaaattt 
      aaaacatta aagcaataa taggacgtt tttaaataa 
      aacgttaaa aatgttacg gtgataagt ataaagaaa 
      actttcgag agtagtgca gatatttca aagggtgat 
      agtagaact ctaaagaag tgagaactt gcctttaaa 
      tttaaattt gggatgcat cttttagtg ttttttatt 
      aaactacct aacttcaat aataaagtg gtatttcag 
      ttacaatta gcttacgac atttcgttt cgaatacca 
      agtgaaaaa ggtttatga agtttcaaa taaaattat 
      tttttaatt ttctgttca tcgcctatt aattttagt 
      gtttttcaa atcgtattt tcggactga ggtagtagt 
      acatttttt acggtctgg ctagtcctg tgaatagaa 
      aacctattt aagatagct gtagatgtc tgaacaaac 
      ggttcaaaa gtatttcag atatttagc atcagagaa 
      aagcaattt aataaataa ttgtttccc agaaaataa 
      catagatat tcaggtttc ccaatactt attttaaca 
      cttgaaaaa gtagtgtat ctgatttgt gtaaagtat 
      gtctagaat ttgattacc aatgtttaa agatatgta 
      agatttttc attgtagtt tgtcgtcag aggacaaaa 
      tttttttct aagaatatt agcaaagaa acaattgta 
      aaaattaat tcaaacagg tgaacagct attttaact 
      atacagcag aaatcaatt gagtttatg attatgact 
      aactagtaa ttggttagt cagaaaatg gattaaagt 
      aaacagcaa aaaattaaa tttaaaacc agtgacctc 
      ctaacactt ggccattat taagtcttt tgaaaaata 
      aattcgtgt tgttttg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY