Status
Please wait ...
Gene information
General information
TC033646
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC009717 		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: 4858188..4859592
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
    		TC033646
    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_02844

    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 (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    head irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC033646 RA
      MDTTPKAKL RLSTKAKKD VKNGGNNSA ALQSPVRKT 
VQREGDSDY SPIFFPSTQ ESNDDIDVL WDWHSPQTS 
QKKRKKQKR LLPSQSPKI PLRRFPSNN QSQNFEKLK 
NELKALQEE LAMPDESWL SVSPQEECD FKSSLNSKI 
VVEPESLFD DDDLFNDSF DEQLVLFTQ QIEGELLNK 
EKVEPSDKK SEQSTETDN VVNKHTAKQ ENVNLSQPT 
KICDSEVDN IINKYVTKK DNELNLSDS FFEDVVSDL 
AFDDLQQNS SPNQSKVPF QRTRSENCF NKTTQNVIQ 
TASGKLEFN RTRSFEMTR ETKCTEEEI ERKRLEALA 
KRNSKKRQE SSAPIKCSP EEIERKRLE AMAKLQAKK 
MQDVIEKKR QEALKKLQM RKQNACHVK STLATRL
    CDS sequence
    • >TC033646 RA
      atggacaca acaccaaaa gcaaaactc cgtttatct 
accaaagca aaaaaagat gttaaaaat gggggcaac 
aattcagcg gccctccag tcgcctgtg agaaaaaca 
gtccaacgt gagggcgac agtgactat agccccatt 
tttttccct tcaactcag gaatctaac gacgatatt 
gacgtattg tgggactgg cattctccc caaaccagc 
cagaaaaaa agaaaaaaa cagaagcgt ttactaccg 
tcccagtca ccaaaaatc cccctacga cggttcccg 
tctaataat caaagtcag aattttgaa aaattgaaa 
aatgagttg aaggcgctt caagaggaa ctggcaatg 
cctgatgaa agttggctc tctgtttcg ccacaagag 
gaatgtgac ttcaaaagc agtctcaac agtaaaata 
gtcgtagaa ccagagtcg ttgtttgat gatgacgat 
ttattcaac gattctttt gatgaacag cttgttttg 
tttacccag caaatagaa ggtgaacta ttgaacaag 
gaaaaagtg gaaccaagt gataaaaaa tcagaacaa 
tccaccgaa actgataac gtagttaat aaacacaca 
gcgaaacaa gagaacgta aatttatca caacccacg 
aaaatatgc gatagtgaa gttgataac ataattaat 
aaatacgta accaaaaaa gacaacgaa ttaaattta 
tcagatagt ttctttgag gatgttgta agtgatctc 
gcatttgac gatttacag caaaatagt tcacctaat 
caatcaaaa gttcctttt caaagaacg cgctcggaa 
aactgtttc aacaaaacc acacagaac gtaatccaa 
acagcgtcg ggcaaactc gaatttaat aggactcga 
agttttgaa atgacgaga gaaaccaaa tgtaccgaa 
gaagaaata gaaaggaag cgacttgaa gctttagcg 
aaacgtaat tctaaaaag agacaagaa agttcagcg 
ccaatcaaa tgctctcct gaagaaatt gagcggaag 
agactagaa gccatggcc aagttgcaa gcaaagaaa 
atgcaagat gtgatcgag aagaagcga caagaagcc 
ttaaagaag ctgcagatg agaaaacag aacgcgtgc 
catgttaaa agcacatta gctacaagg ctttaa
    mRNA sequence
    • >TC033646 RA
      agtttaaaa attgaataa ttgtcaaac gcattaaac 
taaccttac tcttttcac attaatgtt tttattgtt 
ttacaaata aatctcgac ttttggaat tatatcatg 
gacacaaca ccaaaagca aaactccgt ttatctacc 
aaagcaaaa aaagatgtt aaaaatggg ggcaacaat 
tcagcggcc ctccagtcg cctgtgaga aaaacagtc 
caacgtgag ggcgacagt gactatagc cccattttt 
ttcccttca actcaggaa tctaacgac gatattgac 
gtattgtgg gactggcat tctccccaa accagccag 
aaaaaaaga aaaaaacag aagcgttta ctaccgtcc 
cagtcacca aaaatcccc ctacgacgg ttcccgtct 
aataatcaa agtcagaat tttgaaaaa ttgaaaaat 
gagttgaag gcgcttcaa gaggaactg gcaatgcct 
gatgaaagt tggctctct gtttcgcca caagaggaa 
tgtgacttc aaaagcagt ctcaacagt aaaatagtc 
gtagaacca gagtcgttg tttgatgat gacgattta 
ttcaacgat tcttttgat gaacagctt gttttgttt 
acccagcaa atagaaggt gaactattg aacaaggaa 
aaagtggaa ccaagtgat aaaaaatca gaacaatcc 
accgaaact gataacgta gttaataaa cacacagcg 
aaacaagag aacgtaaat ttatcacaa cccacgaaa 
atatgcgat agtgaagtt gataacata attaataaa 
tacgtaacc aaaaaagac aacgaatta aatttatca 
gatagtttc tttgaggat gttgtaagt gatctcgca 
tttgacgat ttacagcaa aatagttca cctaatcaa 
tcaaaagtt ccttttcaa agaacgcgc tcggaaaac 
tgtttcaac aaaaccaca cagaacgta atccaaaca 
gcgtcgggc aaactcgaa tttaatagg actcgaagt 
tttgaaatg acgagagaa accaaatgt accgaagaa 
gaaatagaa aggaagcga cttgaagct ttagcgaaa 
cgtaattct aaaaagaga caagaaagt tcagcgcca 
atcaaatgc tctcctgaa gaaattgag cggaagaga 
ctagaagcc atggccaag ttgcaagca aagaaaatg 
caagatgtg atcgagaag aagcgacaa gaagcctta 
aagaagctg cagatgaga aaacagaac gcgtgccat 
gttaaaagc acattagct acaaggctt taaataagt 
ttaagttga ttaata

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY