Status
Please wait ...
Gene information
General information
TC005617 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: 10591131..10593318
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
    TC005617
    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_09370

    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: % (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
    • >TC005617 RA
      MIENSLDAH STNIQITVK NGGLKLLQI QDNGTGIRK 
      DDFAIVCER FTTSKLREF DDLQNIATY GFRGEALAS 
      ISHIAHLTI VSKTCNELC AYKAHFVDG KLQGAPLPT 
      AGNQGTIVT VEDLFFNMS VRKKALRSP AEEYQKISE 
      VVGKYAIHN SKVGFGLRK SNENNDIRT PPDSTCVEN 
      IRIVYSNTI ARELVDFEL ENDILKFKA RGYMTNVNY 
      SSKKFTFLL FINNRLVDC NNLKKCIDQ VYATYLPKN 
      SHPFVYLSL ELDPVSVDV NVHPTKHEV HFLNEDQIV 
      EAVCGALET RLLKSNNSR VYYTQAKLP GAQADNLPL 
      KDTDKSKIY PKEFVRTDA SEQKIEKFF GAPMSEKEG 
      LSAPFISKV NRVDTELTS VLELRKAVE KNCHRVLRD 
      LFAQHVFVG AINPSQALI QYSTKLFLC NTRKIMTEL 
      LYQFVLYNF QNFGFINFT KPLSVYELA LQGLEVPEV 
      GWTPEDGDK ADLAQKITE ILTKNGEML NEYFSLNVD 
      KTGRLVSLP LILDNYTPD IAGLPVYVV RLATEVTWE 
      SEKECFETV ARETALYYS KMSENSKWE SNDWKWVTE 
      HVVYSAIKE YFMPPKSFT ENVSVLEIA NLPNLYRVF 
      ERC
    CDS sequence
    • >TC005617 RA
      atgatcgag aacagtctc gacgcccac agcacgaat 
      atccaaatt acggtcaaa aacggcggc ttgaagctg 
      ctccagatt caagacaat ggcactggc atccgtaaa 
      gatgatttt gccatcgtt tgcgagcgt ttcaccact 
      tcgaaattg cgcgaattt gacgatttg caaaatatc 
      gccacgtac ggcttccgg ggcgaagcc ctggccagt 
      atcagtcat atcgcgcac ttgactatc gtgtctaaa 
      acgtgcaac gagctgtgc gcctataag gcccatttt 
      gttgacggg aagctccaa ggggcccct ttgccgact 
      gcggggaat caaggcacg attgttaca gtcgaagac 
      ctgttcttc aatatgtca gtccggaaa aaagcactg 
      aggagcccc gctgaagag tatcaaaaa atttcagaa 
      gttgtgggg aaatacgca attcataac agtaaggtc 
      gggttcggg ctgagaaaa tcgaacgaa aataacgat 
      atcaggacc ccgcccgac tcgacgtgc gttgagaac 
      attagaatt gtctacagt aatacgatt gcacgagag 
      ttggttgat tttgagtta gaaaatgat attttaaaa 
      tttaaagca cgggggtac atgacgaat gtcaactat 
      tcgagcaaa aaattcacc tttttattg tttatcaac 
      aatagatta gtcgattgc aataatttg aagaaatgt 
      attgaccag gtctatgcg acttatctg ccgaaaaac 
      agccacccg tttgtttac ctaagcctt gaattagac 
      cccgtaagt gtcgacgtc aacgtgcac cccaccaaa 
      cacgaagtc cacttccta aacgaggac caaatcgtc 
      gaggcagtt tgtggcgcc cttgagacc cgactcttg 
      aaatcgaac aattctaga gtctactac acccaagcc 
      aaactgccg ggggcccaa gccgataat ttacccctc 
      aaagacacg gacaagtca aagatatac ccgaaagaa 
      ttcgtccga acggacgct agtgagcaa aaaatcgag 
      aagtttttt ggagcccca atgtcggaa aaagaggga 
      ctgagcgcc cccttcatt tccaaagtc aatagggtg 
      gacactgaa ctgacgagt gtcctggaa ctgcgcaaa 
      gccgtcgaa aaaaactgt caccgggtg ctgcgcgac 
      cttttcgcc cagcatgtc tttgtgggg gctattaac 
      ccctcccag gccctgatc caatacagc acaaagttg 
      tttctgtgt aatactaga aaaatcatg acggagctg 
      ttataccag ttcgttttg tataatttc caaaatttc 
      ggtttcatc aattttacg aagcctcta tcggtttat 
      gagttggcg ttgcaaggg ctggaggta ccggaggtc 
      ggctggacg cctgaagac ggggacaag gcggatttg 
      gcgcaaaaa atcaccgag attttgacc aaaaacggg 
      gaaatgttg aacgaatat ttctcgctg aatgttgac 
      aagacgggg cggttggtt tcgcttccg ctgattttg 
      gataattac acgcctgat attgccggg cttccggtg 
      tacgtggtt agattagcg actgaggtt acttgggag 
      tcggaaaag gaatgtttc gagacagtg gccagagaa 
      accgctctt tattactcc aaaatgagc gagaactca 
      aagtgggag agcaacgac tggaagtgg gtaaccgag 
      cacgtggtg tactcagca attaaggag tatttcatg 
      cccccgaag agcttcacc gagaacgtg tcagtcctg 
      gaaatcgcc aatttgccc aatttgtac agagtgttt 
      gaacggtgt taa
    mRNA sequence
    • >TC005617 RA
      aagaaatca aaaaattgg acgaggctg taattaacc 
      gaatcgccg ccggtgaga taattcaaa ggccggcaa 
      acgccctta aggaaatga tcgagaaca gtctcgacg 
      cccacagca cgaatatcc aaattacgg tcaaaaacg 
      gcggcttga agctgctcc agattcaag acaatggca 
      ctggcatcc gtaaagatg attttgcca tcgtttgcg 
      agcgtttca ccacttcga aattgcgcg aatttgacg 
      atttgcaaa atatcgcca cgtacggct tccggggcg 
      aagccctgg ccagtatca gtcatatcg cgcacttga 
      ctatcgtgt ctaaaacgt gcaacgagc tgtgcgcct 
      ataaggccc attttgttg acgggaagc tccaagggg 
      cccctttgc cgactgcgg ggaatcaag gcacgattg 
      ttacagtcg aagacctgt tcttcaata tgtcagtcc 
      ggaaaaaag cactgagga gccccgctg aagagtatc 
      aaaaaattt cagaagttg tggggaaat acgcaattc 
      ataacagta aggtcgggt tcgggctga gaaaatcga 
      acgaaaata acgatatca ggaccccgc ccgactcga 
      cgtgcgttg agaacatta gaattgtct acagtaata 
      cgattgcac gagagttgg ttgattttg agttagaaa 
      atgatattt taaaattta aagcacggg ggtacatga 
      cgaatgtca actattcga gcaaaaaat tcacctttt 
      tattgttta tcaacaata gattagtcg attgcaata 
      atttgaaga aatgtattg accaggtct atgcgactt 
      atctgccga aaaacagcc acccgtttg tttacctaa 
      gccttgaat tagaccccg taagtgtcg acgtcaacg 
      tgcacccca ccaaacacg aagtccact tcctaaacg 
      aggaccaaa tcgtcgagg cagtttgtg gcgcccttg 
      agacccgac tcttgaaat cgaacaatt ctagagtct 
      actacaccc aagccaaac tgccggggg cccaagccg 
      ataatttac ccctcaaag acacggaca agtcaaaga 
      tatacccga aagaattcg tccgaacgg acgctagtg 
      agcaaaaaa tcgagaagt tttttggag ccccaatgt 
      cggaaaaag agggactga gcgccccct tcatttcca 
      aagtcaata gggtggaca ctgaactga cgagtgtcc 
      tggaactgc gcaaagccg tcgaaaaaa actgtcacc 
      gggtgctgc gcgaccttt tcgcccagc atgtctttg 
      tgggggcta ttaacccct cccaggccc tgatccaat 
      acagcacaa agttgtttc tgtgtaata ctagaaaaa 
      tcatgacgg agctgttat accagttcg ttttgtata 
      atttccaaa atttcggtt tcatcaatt ttacgaagc 
      ctctatcgg tttatgagt tggcgttgc aagggctgg 
      aggtaccgg aggtcggct ggacgcctg aagacgggg 
      acaaggcgg atttggcgc aaaaaatca ccgagattt 
      tgaccaaaa acggggaaa tgttgaacg aatatttct 
      cgctgaatg ttgacaaga cggggcggt tggtttcgc 
      ttccgctga ttttggata attacacgc ctgatattg 
      ccgggcttc cggtgtacg tggttagat tagcgactg 
      aggttactt gggagtcgg aaaaggaat gtttcgaga 
      cagtggcca gagaaaccg ctctttatt actccaaaa 
      tgagcgaga actcaaagt gggagagca acgactgga 
      agtgggtaa ccgagcacg tggtgtact cagcaatta 
      aggagtatt tcatgcccc cgaagagct tcaccgaga 
      acgtgtcag tcctggaaa tcgccaatt tgcccaatt 
      tgtacagag tgtttgaac ggtgttaat aaaatttga 
      aaaatggtt tgttatgtt g
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY