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Gene information
General information
TC006257 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_007423.3: 5892034..5894062
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
    TC006257
    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_10974

    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: 10.0% (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


    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
    • >TC006257 RA
      MTHLQPKYD YTFAQLYLQ KCREVQLLA NRNVTYNET 
      TEPQKQQPP VIVLDDEED STQPQNGNI ITNPSMVPE 
      LNDLQVTGV TLLKEWIDI SELQVNPQE INHQPYVAR 
      NHKPQKHNH GVVNQKDSE LLQLLNQND KIVQDHIPQ 
      KNNQSAGAP NHEPQKDKD QVGLNQALP KNNETQVGI 
      EGQTNDEVD VARKPEVEN NVAMNPEPQ TTVARSPDT 
      QNNDEIVAA PEIEENEAN WADVDVEEA PESPAPTPA 
      PTSKFSCSH CSYQTDWKS NMNKHVVSR HQSQDEIKW 
      YKCPHCPYK GKTSEYLKT HLRQLHEPY VKWHYCTKC 
      PLKFKLKSV FKDHILSVH TPPEDIQWF QCDKCEFKC 
      KFKKQLARH ESRIHLKFG EITWFKCEK CDYKTKWKN 
      SLKSHAITR HAGYEDYKW KVCDQCGLL LKAKELENH 
      LISFHCGPK RKKTDEETR EWKCDRCGL NTFSRKTFE 
      EHFKTDGRT YFCS
    CDS sequence
    • >TC006257 RA
      atgacacac ctccaaccc aagtacgac tacaccttc 
      gcccaactt tatctacaa aaatgcaga gaagtccag 
      cttttagcc aacaggaac gtaacgtac aacgaaaca 
      acagaacca caaaaacag caaccaccc gtcatagtt 
      ttagacgat gaggaagac tccacacaa ccacaaaat 
      ggcaatatt atcaccaac ccctcaatg gtacccgaa 
      ctcaacgat ttgcaagtc accggagtc acactttta 
      aaagaatgg attgatatt agtgaacta caagtgaac 
      cctcaagaa ataaaccac caaccctac gttgctaga 
      aaccacaaa cctcaaaaa cataaccat ggtgttgtg 
      aaccaaaag gactctgaa cttctccaa cttttaaac 
      caaaacgac aaaatcgtg caagaccac atacctcaa 
      aaaaacaat caaagtgca ggtgcccct aaccatgaa 
      cctcaaaaa gacaaagat caagttggc ctgaaccag 
      gcacttcca aaaaacaac gaaactcaa gttggcatt 
      gagggccaa acaaatgat gaagttgac gttgctagg 
      aaacccgaa gttgaaaat aacgttgct atgaaccct 
      gaacctcaa acaaccgtt gctaggagc cctgatact 
      caaaataat gacgaaatt gttgctgct ccagaaatc 
      gaggaaaat gaggcgaat tgggccgat gtagacgtg 
      gaggaggcc cccgagtcg ccggccccg accccagcc 
      ccgacctca aaattcagc tgttcgcac tgttcgtac 
      cagactgac tggaagagt aacatgaac aagcacgtg 
      gtcagtcgg caccaatca caggatgag atcaagtgg 
      tacaagtgt ccccattgc ccatacaag ggcaaaaca 
      agtgagtac ctcaagacc cacctccgc caactgcac 
      gaaccctac gtgaagtgg cactactgt accaagtgt 
      cccttgaag ttcaaactg aaatcagtc ttcaaggac 
      catatcctg tccgtgcac acacccccc gaggacatt 
      cagtggttc cagtgtgat aaatgcgag ttcaagtgc 
      aagtttaag aagcaattg gcgagacac gaaagtagg 
      atacattta aagtttggt gaaattacg tggttcaag 
      tgcgagaag tgtgactat aagacaaag tggaagaac 
      tcgttaaag tcgcatgcc atcactcgg catgcgggt 
      tatgaggat tataaatgg aaggtttgt gatcagtgt 
      gggcttcta ttgaaagcc aaagagttg gagaaccat 
      ctaatatca ttccattgt ggtccaaag agaaaaaaa 
      actgatgaa gaaacaaga gagtggaag tgtgatagg 
      tgcgggttg aatacattc agtcggaaa actttcgag 
      gaacatttc aagaccgac ggacggacg tatttttgt 
      tcatga
    mRNA sequence
    • >TC006257 RA
      ttccaacca aatgtcctt caactttac taacttaag 
      cctttgttg tatattttt cgttaggtt ttataaccc 
      tatttttat gattttttt gctaaaaaa ttactatta 
      aaaaacaaa tgagccgga aatgacaca cctccaacc 
      caagtacga ctacacctt cgcccaact ttatctaca 
      aaaatgcag agaagtcca gcttttagc caacaggaa 
      cgtaacgta caacgaaac aacagaacc acaaaaaca 
      gcaaccacc cgtcatagt tttagacga tgaggaaga 
      ctccacaca accacaaaa tggcaatat tatcaccaa 
      cccctcaat ggtacccga actcaacga tttgcaagt 
      caccggagt cacactttt aaaagaatg gattgatat 
      tagtgaact acaagtgaa ccctcaaga aataaacca 
      ccaacccta cgttgctag aaaccacaa acctcaaaa 
      acataacca tggtgttgt gaaccaaaa ggactctga 
      acttctcca acttttaaa ccaaaacga caaaatcgt 
      gcaagacca catacctca aaaaaacaa tcaaagtgc 
      aggtgcccc taaccatga acctcaaaa agacaaaga 
      tcaagttgg cctgaacca ggcacttcc aaaaaacaa 
      cgaaactca agttggcat tgagggcca aacaaatga 
      tgaagttga cgttgctag gaaacccga agttgaaaa 
      taacgttgc tatgaaccc tgaacctca aacaaccgt 
      tgctaggag ccctgatac tcaaaataa tgacgaaat 
      tgttgctgc tccagaaat cgaggaaaa tgaggcgaa 
      ttgggccga tgtagacgt ggaggaggc ccccgagtc 
      gccggcccc gaccccagc cccgacctc aaaattcag 
      ctgttcgca ctgttcgta ccagactga ctggaagag 
      taacatgaa caagcacgt ggtcagtcg gcaccaatc 
      acaggatga gatcaagtg gtacaagtg tccccattg 
      cccatacaa gggcaaaac aagtgagta cctcaagac 
      ccacctccg ccaactgca cgaacccta cgtgaagtg 
      gcactactg taccaagtg tcccttgaa gttcaaact 
      gaaatcagt cttcaagga ccatatcct gtccgtgca 
      cacaccccc cgaggacat tcagtggtt ccagtgtga 
      taaatgcga gttcaagtg caagtttaa gaagcaatt 
      ggcgagaca cgaaagtag gatacattt aaagtttgg 
      tgaaattac gtggttcaa gtgcgagaa gtgtgacta 
      taagacaaa gtggaagaa ctcgttaaa gtcgcatgc 
      catcactcg gcatgcggg ttatgagga ttataaatg 
      gaaggtttg tgatcagtg tgggcttct attgaaagc 
      caaagagtt ggagaacca tctaatatc attccattg 
      tggtccaaa gagaaaaaa aactgatga agaaacaag 
      agagtggaa gtgtgatag gtgcgggtt gaatacatt 
      cagtcggaa aactttcga ggaacattt caagaccga 
      cggacggac gtatttttg ttcatgaaa tcatgtatt 
      tttttataa taaaacttt tacaacatc gctgctcgt 
      gtttttcaa ctatttggg gatttttgc tctcgctac 
      gttggtcac aaattttca tcacggtat ttttttata 
      ccatggcca actaacaaa agtctcctt tggacggtt 
      ttcctaact taaacattt ttaagttga ttaaaacaa 
      aaccaagaa aatatgtga ccaaac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY