Status
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Gene information
General information
TC007104 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_007419.2: 9438691..9472588
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
    TC007104
    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_04276

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection


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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007104 RA
      MDQGESEVV YARHEDIVR ILNRLNETQ AELACELKK 
      TLSPPSNGC AVDFDTVLC WPQTAPNSL AVLPCFDQL 
      NGIKYDTRE NATRLCFAN GTWDQYSNY TSCKELSPL 
      EVPEVELTT TIYFIGYTV SLVALLFAV YIFWKFKDL 
      RCLRNTIHM NLMCSYILA DFMWIFVYS LQVPLQTNK 
      AFCIFLIIL LHYFHLTNF FWMFVEGLY LYILVVKTF 
      TGENIKPRI YAVIGWGGP ILFVLVWGI AKSFTLPLE 
      DQQAGEMFR SCPWTPHPF DWIYQGPAI AVLIINVIF 
      LCIIMWVLI TKLRSANNV ETQQYRKAA KALLVLIPL 
      LGVTYILVI VGPTEGISR RIYDSIRAI LLSTQGFTV 
      ALFYCFLNA EVKNTVRHH YNSWHTRRT LGSRRTRYS 
      SSKDWSSQA RDSMRLYQT NSYRKRGST CSTGTTTTV 
      VVVPFPKLS QQTKFSNDV G
    CDS sequence
    • >TC007104 RA
      atggatcag ggtgaaagc gaggttgtt tatgcccgc 
      catgaggac atcgtccgt atcctgaat cgtctcaat 
      gaaacccag gcggaatta gcttgcgaa cttaaaaaa 
      acactctcg cccccatcg aatggatgt gctgtcgac 
      ttcgatacg gttttgtgt tggccgcaa acggcgccg 
      aattccctt gctgtttta ccttgcttc gaccagctc 
      aatggcatt aagtacgac acgagagaa aacgcgacg 
      cgtttgtgt ttcgccaac ggaacttgg gaccaatat 
      agcaactat acctcgtgc aaagaattg tctcctttg 
      gaggtgccc gaagtggaa ctaacaacc acaatttac 
      ttcattggc tacaccgtc agcctagtg gcgctcctc 
      tttgccgtt tacatcttc tggaagttc aaagacttg 
      cgatgtctg cgaaatacc atccatatg aatctgatg 
      tgttcctac atccttgcg gattttatg tggattttc 
      gtttacagt ttgcaggtt cctttacaa actaacaag 
      gctttctgc atattcctc ataattctg ctgcactac 
      ttccacctg acgaacttt ttctggatg tttgtggaa 
      ggtttatat ctatacatt ttggtggtg aaaacattc 
      accggcgag aacatcaag cctcggatc tacgcagta 
      ataggttgg gggggaccg attctgttt gtactggtc 
      tggggcatc gctaaaagt ttcacacta ccattagag 
      gaccaacag gcgggtgag atgttccgg agctgtcct 
      tggactccg catcctttc gattggatc taccaagga 
      cccgcaatt gccgttctt ataattaat gtaatattc 
      ctttgcata atcatgtgg gtattaata accaaactc 
      cggtcagcc aacaacgtt gaaacgcag cagtaccgg 
      aaagcggcc aaagctcta ctagtcctt attcctctc 
      ctgggagtc acttacatt ctagttata gtggggccc 
      accgaaggc atctccaga cgcatatac gacagcatt 
      agagccatc ctcttatct acacagggc ttcacagtg 
      gcgcttttt tactgcttc ctcaacgct gaggtgaag 
      aacacagtg cgccaccat tacaacagt tggcacact 
      cgtcgaact ttaggttcg cgaagaacc agatattcg 
      tcgagtaaa gattggtcg tcgcaggcc agagacagc 
      atgcgtctg tatcaaaca aattcgtac agaaaaagg 
      gggtccaca tgctcgacc ggtactact acaacggtt 
      gtggtagta ccgttcccg aaattatca caacaaact 
      aagtttagc aacgacgtc ggatga
    mRNA sequence
    • >TC007104 RA
      agcgttgcg tcgtgaaac ttctattta gttgcaaat 
      ttcgtaaac acacgtgac caaaatccg aaactcaat 
      cagcgccag gtcattttt cagtcggtt taatatatg 
      atggaaaat ggatcaggg tgaaagcga ggttgttta 
      tgcccgcca tgaggacat cgtccgtat cctgaatcg 
      tctcaatga aacccaggc ggaattagc ttgcgaact 
      taaaaaaac actctcgcc cccatcgaa tggatgtgc 
      tgtcgactt cgatacggt tttgtgttg gccgcaaac 
      ggcgccgaa ttcccttgc tgttttacc ttgcttcga 
      ccagctcaa tggcattaa gtacgacac gagagaaaa 
      cgcgacgcg tttgtgttt cgccaacgg aacttggga 
      ccaatatag caactatac ctcgtgcaa agaattgtc 
      tcctttgga ggtgcccga agtggaact aacaaccac 
      aatttactt cattggcta caccgtcag cctagtggc 
      gctcctctt tgccgttta catcttctg gaagttcaa 
      agacttgcg atgtctgcg aaataccat ccatatgaa 
      tctgatgtg ttcctacat ccttgcgga ttttatgtg 
      gattttcgt ttacagttt gcaggttcc tttacaaac 
      taacaaggc tttctgcat attcctcat aattctgct 
      gcactactt ccacctgac gaacttttt ctggatgtt 
      tgtggaagg tttatatct atacatttt ggtggtgaa 
      aacattcac cggcgagaa catcaagcc tcggatcta 
      cgcagtaat aggttgggg gggaccgat tctgtttgt 
      actggtctg gggcatcgc taaaagttt cacactacc 
      attagagga ccaacaggc gggtgagat gttccggag 
      ctgtccttg gactccgca tcctttcga ttggatcta 
      ccaaggacc cgcaattgc cgttcttat aattaatgt 
      aatattcct ttgcataat catgtgggt attaataac 
      caaactccg gtcagccaa caacgttga aacgcagca 
      gtaccggaa agcggccaa agctctact agtccttat 
      tcctctcct gggagtcac ttacattct agttatagt 
      ggggcccac cgaaggcat ctccagacg catatacga 
      cagcattag agccatcct cttatctac acagggctt 
      cacagtggc gctttttta ctgcttcct caacgctga 
      ggtgaagaa cacagtgcg ccaccatta caacagttg 
      gcacactcg tcgaacttt aggttcgcg aagaaccag 
      atattcgtc gagtaaaga ttggtcgtc gcaggccag 
      agacagcat gcgtctgta tcaaacaaa ttcgtacag 
      aaaaagggg gtccacatg ctcgaccgg tactactac 
      aacggttgt ggtagtacc gttcccgaa attatcaca 
      acaaactaa gtttagcaa cgacgtcgg atgagaaat 
      aatgccgcg aggagatag aaggtacac aaaggaaat 
      tccccttga aaatttatt caattttcg gttttagag 
      caaccatgg acactcttc tggaagagg aaggagcct 
      gttcgtaca attcttctc gtggcaatt ccattccga 
      atgttgaca tatcagcgt ttaacataa actgaacgc 
      aacgttgtg attgtggac ctcaaaatg ctatttttg 
      tcacacctg gacaatctt atgacaatg tttaatgtg 
      gaatatttt ttctatgtc gatgggtgt catttttgt 
      actcgttta ccaacaaat atctgcagt ttcatgttt 
      aatgaagcc attctcgaa ttgttttcc ttgtgatgc 
      atgtaaatt aaatgcata attaacagt ttcattcaa 
      atgtaaaat atgtaaatg gtgaaaaaa gatataaaa 
      aattatgga ccgtgtaac ccaaaggaa atatatcat 
      acataataa a
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