Status
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Gene information
General information
TC009318 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_007422.5: 332426..347946
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
    TC009318
    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_04618

    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 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: % (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
    • >TC009318 RA
      MRLTELSGR KSSAMQFFY YIVLSIFSI NSTGAARRS 
      PINGTWIRM GMMMDEKMQ GDQGPPTCH TLPGLSPGQ 
      IRLCQLYMD HMNAVALGA RQALSECKH QFENRRWNC 
      SLLNDVNVF GPVITIASR ESAFAHALA SAGVSYAVS 
      RACRDGQLA SCGCSRMGR PKDLRKDWV WGGCGDNLE 
      YGYKFTQNF VDVREKERK FKRGSKEQG RNLMNLHNN 
      EAGRRAVIK KSKVTCKCH GVSGSCSLI TCWQQLATF 
      REIGDYLRD KYDGATEVR INRRGRLQL RDTRFRVPT 
      AYDLVYMED SPNYCIRDE RVGSLGTQG RTCNRTSQD 
      LDGCNLLCC GRGYNTLKS TIKERCHCK FKWCCEVEC 
      KTCVRSVDV HTCK
    CDS sequence
    • >TC009318 RA
      atgcgtctc acggagttg tccgggaga aaatctagt 
      gcaatgcag tttttctat tacatcgtg ctgagcatc 
      ttctccata aattcaacg ggagcagca cggaggtcg 
      ccgataaac ggcacatgg atacgaatg ggcatgatg 
      atggatgaa aaaatgcaa ggtgatcaa ggaccacca 
      acatgccac acacttccg ggtttgagt cccggacaa 
      atccggctc tgtcaattg tacatggac catatgaat 
      gctgtggca ttgggggct cgtcaggcg ctatccgag 
      tgtaaacat cagtttgaa aatcgcagg tggaactgt 
      tctttactg aatgacgtc aatgtcttt ggtccagtt 
      ataacaatc gctagccgc gaatcagca tttgcacac 
      gctctagct tcagccgga gtgtcttac gccgtttca 
      agagcttgc agagatggt caacttgca tcttgtgga 
      tgctcaaga atgggacga ccaaaggat ttacgaaaa 
      gattgggta tggggcgga tgtggcgac aatttagag 
      tatggatac aaattcaca caaaacttt gtagacgtt 
      cgggaaaag gaacgcaaa tttaagaga ggatccaag 
      gagcaagga cgcaacctt atgaacttg cacaacaac 
      gaggctggg agaagagca gtcatcaag aagtcgaaa 
      gttacttgt aaatgtcac ggagtgtca ggttcttgt 
      tctttgata acttgctgg cagcaactc gccacgttt 
      cgagaaatc ggcgattat ttgcgtgat aaatacgac 
      ggagctacc gaggtgcgc atcaaccgt cgtggacgt 
      ctccaactc cgcgacacg cgttttcga gtgcccacc 
      gcctacgac ctcgtctac atggaggat tcccccaac 
      tattgcatc cgcgacgaa cgcgtgggt tccttaggg 
      acgcagggc cgtacttgc aacaggaca tcacaggac 
      ctcgacggt tgcaacctt ttgtgctgc ggtcgcggc 
      tacaacacc ctcaaatca acgatcaag gaacgctgc 
      cactgtaag ttcaagtgg tgctgtgaa gtcgagtgc 
      aagacgtgt gtgcgatca gtggacgtg cacacgtgc 
      aagtga
    mRNA sequence
    • >TC009318 RA
      tggatggat ggtgggtac ggctcttta ttcgtcgtt 
      gcattctca ttcagttca cggcggttg ttcggtcgg 
      tggacagac agacagacg gtctctttg atcagatag 
      atcggtgat taggactca gattaaaga gcctgtgct 
      ttttcagca atgcgccga acttttatg agtgatgat 
      tgtgtcgca tttttttgt gttattgtg gattaattt 
      gccagttta gaaaaatgc gtctcacgg agttgtccg 
      ggagaaaat ctagtgcaa tgcagtttt tctattaca 
      tcgtgctga gcatcttct ccataaatt caacgggag 
      cagcacgga ggtcgccga taaacggca catggatac 
      gaatgggca tgatgatgg atgaaaaaa tgcaaggtg 
      atcaaggac caccaacat gccacacac ttccgggtt 
      tgagtcccg gacaaatcc ggctctgtc aattgtaca 
      tggaccata tgaatgctg tggcattgg gggctcgtc 
      aggcgctat ccgagtgta aacatcagt ttgaaaatc 
      gcaggtgga actgttctt tactgaatg acgtcaatg 
      tctttggtc cagttataa caatcgcta gccgcgaat 
      cagcatttg cacacgctc tagcttcag ccggagtgt 
      cttacgccg tttcaagag cttgcagag atggtcaac 
      ttgcatctt gtggatgct caagaatgg gacgaccaa 
      aggatttac gaaaagatt gggtatggg gcggatgtg 
      gcgacaatt tagagtatg gatacaaat tcacacaaa 
      actttgtag acgttcggg aaaaggaac gcaaattta 
      agagaggat ccaaggagc aaggacgca accttatga 
      acttgcaca acaacgagg ctgggagaa gagcagtca 
      tcaagaagt cgaaagtta cttgtaaat gtcacggag 
      tgtcaggtt cttgttctt tgataactt gctggcagc 
      aactcgcca cgtttcgag aaatcggcg attatttgc 
      gtgataaat acgacggag ctaccgagg tgcgcatca 
      accgtcgtg gacgtctcc aactccgcg acacgcgtt 
      ttcgagtgc ccaccgcct acgacctcg tctacatgg 
      aggattccc ccaactatt gcatccgcg acgaacgcg 
      tgggttcct tagggacgc agggccgta cttgcaaca 
      ggacatcac aggacctcg acggttgca accttttgt 
      gctgcggtc gcggctaca acaccctca aatcaacga 
      tcaaggaac gctgccact gtaagttca agtggtgct 
      gtgaagtcg agtgcaaga cgtgtgtgc gatcagtgg 
      acgtgcaca cgtgcaagt gatttgtac ttgtacata 
      catacaaag aaaaacgac aattgtgag tgttcatgg 
      tttttgtct atgctgctt agtggacgt ggacatcag 
      tgacttgcg ttcaaatgg gttttaagt aactaagtt 
      attaattta tttgttgat tttatttcg tttgttgtg 
      tagttattt ttagggttt ctacgttca gtattcgtc 
      tttttacgc tttatttat ttattaagg atgtacagg 
      atgagtagc taggtattg cttctttag ctgtttgca 
      aggagttaa atcagcgat tttattcat gaaatattt 
      ttctatatg caagtagga tgtattgta atgtatcta 
      ttatatttt tgtatttat gaaaaaaat atttagtta 
      tatttacta ataagtgtt tatttataa ttatcacca 
      aaccctgtt caatttttt gttctgttt gtttgtaat 
      tttactgaa aaaagactg gtgtaaata attgctcct 
      ttaaatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY