Status
Please wait ...
Gene information
General information
TC005909 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: 5757105..5759715
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
    TC005909
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04036

    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: < 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: 20.0% (includes death as larva, prepupa, pupa, adult)

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


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    Fertility
    egg production: number <50% of expected -
    Comment: No phenotype found!
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005909 RA
      MESAPEPQI KIEDIKQEE NAPVEGPIE ENAPPENDP 
      YAYLDRSDF SSEKFKIEI KNLPKIYGI SEFRKLLNN 
      KLKLNSTKI KAPKRNSPY AFVCFRSDE DRNKAIETL 
      SGFKWKGKP LQAIRAKPS PDPLVKKRK EDSEEGPNK 
      KIKIDNRSQ EEKLKSSTI PLWDVPYEE QLKTKQEEA 
      RNILKRLGN ELARQNPDL REWLNKQKE KFDGLPCEL 
      LNIRYADEC DGYRNKCSF TVGIDEETK LPTVGFRIG 
      SYVNGITGV GSIESLKHI PESMKLAVK LFQDYVRAS 
      DLQVFNFEV HTGHFRQLT IRTAQDQIM LVVGIHPQD 
      LSEEKLKVF KNSLIHYFT EGAGKEAKI TSLYYQKIV 
      KKIAGEDSD GSEHLWGDT HICETLLGL KFKISPEAF 
      FQINTKGAE ILYKSIIEL ASPTEDSTV LDVCCGTGT 
      IGLCFAKNC KKVLGIEIV PQAIIDAKA NAKLNEIEN 
      SEFFEGKAE EILGSVCYR AMGDVVAVV DPPRAGLQQ 
      KAVVQIRKI NKIGQLVYV SCNPAAALK NFIDIGRPA 
      SKTLHNEPL VPVRAVVVD MFPHTRHCE LIISFKRFD 
      KLLIVDSDS K
    CDS sequence
    • >TC005909 RA
      atggaatcc gcccccgag ccccaaata aaaattgaa 
      gacataaaa caagaagag aatgctcct gttgagggt 
      ccaattgag gaaaatgcg ccccctgaa aacgacccg 
      tacgcttac ttggaccga tctgacttc tcatcggaa 
      aaattcaag attgaaatc aaaaacctt ccgaaaatt 
      tacggaata agcgaattc cgtaaatta ctaaataac 
      aagcttaag ttgaattct accaaaatt aaggctccg 
      aaaaggaat agtccgtac gcatttgtg tgttttcgc 
      agtgatgag gatagaaat aaggctata gagacgttg 
      agtgggttt aaatggaaa gggaagcct cttcaagca 
      ataagggcg aaaccatca cctgatcct ttggttaag 
      aaaaggaaa gaagattcg gaagaaggg ccaaataaa 
      aaaattaaa attgataat cgcagtcaa gaagagaag 
      cttaaatcg tccacaata ccgttgtgg gacgtgcca 
      tatgaggaa caattgaaa actaaacaa gaagaggca 
      aggaacatt ttaaaacga ttgggtaat gaactagca 
      cgtcaaaat cccgattta agggagtgg ttaaataaa 
      cagaaagaa aaattcgat gggcttcca tgtgaatta 
      cttaatatt cgatatgct gatgaatgt gacggctac 
      cgaaataaa tgttccttc accgtcgga attgatgaa 
      gaaacaaaa ctaccaact gttggattc agaattggg 
      agttacgtt aatggaatt acgggtgtt ggtagcatt 
      gaatcttta aaacacatt cccgaatca atgaaactg 
      gctgtaaaa ctgtttcaa gattacgta agagcctca 
      gatttgcaa gtctttaat tttgaagta cacactgga 
      cacttccga caattgaca atcagaaca gcccaagat 
      caaatcatg ttagttgtg ggaatacac cctcaggac 
      ttatcagag gagaagcta aaagttttc aaaaattcg 
      ctcatccat tattttaca gagggcgcc ggaaaagag 
      gcgaaaatc acatctctg tactaccag aaaattgtc 
      aaaaaaatt gcgggggag gattccgac gggtctgag 
      catttatgg ggcgatact cacatttgt gagacttta 
      ctcggccta aaattcaaa atatcccca gaggcgttt 
      ttccaaatt aatacgaaa ggcgccgaa attttatac 
      aaatcaata atcgaacta gcgtcacct actgaagat 
      tcgacagtt cttgatgtt tgttgtggc actggcacc 
      ataggattg tgttttgct aagaactgt aagaaagtc 
      ctgggaatt gaaatagtc ccccaggct ataatagac 
      gccaaagcc aacgcgaaa ttgaacgaa atcgaaaat 
      agcgaattt tttgagggc aaagctgag gagattttg 
      gggtcggtc tgctacagg gctatgggg gacgttgtg 
      gcggtggtg gatccacct cgtgctggt ttacaacaa 
      aaggcagtc gtgcaaata cgcaaaatc aacaaaatt 
      ggacaactt gtgtacgtt tcttgtaat ccagccgct 
      gctttgaaa aattttatt gatattgga cgtccggcc 
      tctaaaact ttacacaat gagccgttg gtgcccgtg 
      agagctgtc gtagttgat atgtttccg cacaccagg 
      cactgcgag ctaattata agttttaaa agatttgat 
      aaattgttg attgtagac agtgattca aaataa
    mRNA sequence
    • >TC005909 RA
      tgtcaacca cgttgttta catcgggag gttaggtga 
      aaatggaat ccgcccccg agccccaaa taaaaattg 
      aagacataa aacaagaag agaatgctc ctgttgagg 
      gtccaattg aggaaaatg cgccccctg aaaacgacc 
      cgtacgctt acttggacc gatctgact tctcatcgg 
      aaaaattca agattgaaa tcaaaaacc ttccgaaaa 
      tttacggaa taagcgaat tccgtaaat tactaaata 
      acaagctta agttgaatt ctaccaaaa ttaaggctc 
      cgaaaagga atagtccgt acgcatttg tgtgttttc 
      gcagtgatg aggatagaa ataaggcta tagagacgt 
      tgagtgggt ttaaatgga aagggaagc ctcttcaag 
      caataaggg cgaaaccat cacctgatc ctttggtta 
      agaaaagga aagaagatt cggaagaag ggccaaata 
      aaaaaatta aaattgata atcgcagtc aagaagaga 
      agcttaaat cgtccacaa taccgttgt gggacgtgc 
      catatgagg aacaattga aaactaaac aagaagagg 
      caaggaaca ttttaaaac gattgggta atgaactag 
      cacgtcaaa atcccgatt taagggagt ggttaaata 
      aacagaaag aaaaattcg atgggcttc catgtgaat 
      tacttaata ttcgatatg ctgatgaat gtgacggct 
      accgaaata aatgttcct tcaccgtcg gaattgatg 
      aagaaacaa aactaccaa ctgttggat tcagaattg 
      ggagttacg ttaatggaa ttacgggtg ttggtagca 
      ttgaatctt taaaacaca ttcccgaat caatgaaac 
      tggctgtaa aactgtttc aagattacg taagagcct 
      cagatttgc aagtcttta attttgaag tacacactg 
      gacacttcc gacaattga caatcagaa cagcccaag 
      atcaaatca tgttagttg tgggaatac accctcagg 
      acttatcag aggagaagc taaaagttt tcaaaaatt 
      cgctcatcc attatttta cagagggcg ccggaaaag 
      aggcgaaaa tcacatctc tgtactacc agaaaattg 
      tcaaaaaaa ttgcggggg aggattccg acgggtctg 
      agcatttat ggggcgata ctcacattt gtgagactt 
      tactcggcc taaaattca aaatatccc cagaggcgt 
      ttttccaaa ttaatacga aaggcgccg aaattttat 
      acaaatcaa taatcgaac tagcgtcac ctactgaag 
      attcgacag ttcttgatg tttgttgtg gcactggca 
      ccataggat tgtgttttg ctaagaact gtaagaaag 
      tcctgggaa ttgaaatag tcccccagg ctataatag 
      acgccaaag ccaacgcga aattgaacg aaatcgaaa 
      atagcgaat tttttgagg gcaaagctg aggagattt 
      tggggtcgg tctgctaca gggctatgg gggacgttg 
      tggcggtgg tggatccac ctcgtgctg gtttacaac 
      aaaaggcag tcgtgcaaa tacgcaaaa tcaacaaaa 
      ttggacaac ttgtgtacg tttcttgta atccagccg 
      ctgctttga aaaatttta ttgatattg gacgtccgg 
      cctctaaaa ctttacaca atgagccgt tggtgcccg 
      tgagagctg tcgtagttg atatgtttc cgcacacca 
      ggcactgcg agctaatta taagtttta aaagatttg 
      ataaattgt tgattgtag acagtgatt caaaataaa 
      atattattg gacaacctg agttttatt ttgattaag 
      ttggcgttg ggtgttacc accgttaac gacgtctgg 
      tgataaacg ccaattaaa aaattaatt atatc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY