Status
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Gene information
General information
TC030911
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.

TC015750,TC015751 		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_007421.3: 7421691..7433168
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
    		TC030911
    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
    {{ goGene }}
    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
    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
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    Email
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05888

    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: 20.0% (includes death as pupa, adult)

    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 muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - 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 - 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): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030911 RA
      MPTECITNP LQRELADSI IRMVPLDEI RILLACGAK 
VNEPVTQGL RPLHYAVWQ RYYEAAQLL LTRGGDVNA 
VDECGYSPL HLSAEHGYT EVVRLLLLS GAKVNYRPN 
TDEDFPRTT QCDEPLRLA IRNKHMDIA RMLLEHGAD 
PNKRYFFGA EINLVTDLE FLELLLTFG ANPDSRDRS 
GLTPLMKAV RQPQGMEAA LILLKYALS VSPIIGSPL 
HVACADNIP NRYDILQML LKAGADPNL KVYNDLYDH 
NSQLRPVLV EYVASNTNP SLAVVNLLI RYGAKVVMK 
TQFRDPDGI LNSLQNVIS AKCDSIFFL LLEASESFD 
VCMIRRNSV ITPEQKATL LELAKYPLS LRRQVRVFL 
RRLLGGNKL IDSVPSFEL PKCLEKYLL FDYS
    CDS sequence
    • >TC030911 RA
      atgccaacc gagtgcatt accaaccct ctccagagg 
gaactcgcc gactccatc atccggatg gtaccattg 
gacgaaatc cggattcta ctagcgtgt ggagcaaag 
gtcaacgaa cccgttact caagggttg cgacctttg 
cattatgca gtctggcaa aggtactac gaagccgcg 
caattgctg ttgacaagg ggtggagat gttaatgca 
gtcgatgaa tgtggttac agccctttg cacctttca 
gcagagcat ggctacacc gaagtggtg cgtctgctg 
ctcctgtcg ggggccaaa gtcaactac cggcccaac 
accgacgag gacttcccc cggacgacg caatgcgac 
gagcccctg cggctcgcc atccgcaac aagcacatg 
gacatcgcc aggatgctc ctcgagcac ggcgccgac 
cccaacaag cgctacttc ttcggggcg gaaatcaac 
ctcgttacg gacctggag tttctggag ctgttgctg 
acgttcggg gccaatccg gacagcagg gacaggtcc 
gggctcacg cccttgatg aaggccgtc aggcagccg 
cagggcatg gaggcggcc ttgattctg ctcaaatac 
gcgctatca gtctccccc atcattggc tcccccctc 
cacgtggcc tgtgccgac aacatcccc aaccgctat 
gacatcctc cagatgctc ctcaaagct ggcgctgac 
cccaacctc aaagtctac aacgacctc tacgaccac 
aattcgcaa ctacggccc gttctagtg gaatatgtt 
gccagtaat accaaccct agccttgct gtggtcaac 
ctcctgatt cgctatgga gccaaagtg gtgatgaaa 
acgcaattt cgggaccct gacggtatc ctcaattcc 
ctccaaaac gttatctcg gccaaatgt gactcaatt 
ttctttctc ttgcttgaa gcgagcgaa tcgttcgat 
gtttgcatg attcggaga aactcggtt ataacgcct 
gagcagaag gcgacgctt ttggagctg gccaagtac 
ccgttgagt ttgaggagg caagtgagg gtgtttttg 
aggaggctt ttgggaggg aataagctc attgattcg 
gtgccgagc ttcgagttg cccaaatgt ttggagaag 
tatctactc tttgactat agctga
    mRNA sequence
    • >TC030911 RA
      ttcagtttg acgccgaga gccaaacta aagcgtcgc 
gacgccaat tcgttcatt taaacttct tcgcaatag 
accctttgt ctgattttc cggaatttt ccgagtttt 
cccacggga ttttcacat cgcgcagtt tacggtcct 
aatttcccc ggcttgagg agcccgttt tgggtggtt 
ttgtgtctt tggtgcgaa tttcgttaa aaaagggac 
atcagtgga gcactgggt ggaatgcca accgagtgc 
attaccaac cctctccag agggaactc gccgactcc 
atcatccgg atggtacca ttggacgaa atccggatt 
ctactagcg tgtggagca aaggtcaac gaacccgtt 
actcaaggg ttgcgacct ttgcattat gcagtctgg 
caaaggtac tacgaagcc gcgcaattg ctgttgaca 
aggggtgga gatgttaat gcagtcgat gaatgtggt 
tacagccct ttgcacctt tcagcagag catggctac 
accgaagtg gtgcgtctg ctgctcctg tcgggggcc 
aaagtcaac taccggccc aacaccgac gaggacttc 
ccccggacg acgcaatgc gacgagccc ctgcggctc 
gccatccgc aacaagcac atggacatc gccaggatg 
ctcctcgag cacggcgcc gaccccaac aagcgctac 
ttcttcggg gcggaaatc aacctcgtt acggacctg 
gagtttctg gagctgttg ctgacgttc ggggccaat 
ccggacagc agggacagg tccgggctc acgcccttg 
atgaaggcc gtcaggcag ccgcagggc atggaggcg 
gccttgatt ctgctcaaa tacgcgcta tcagtctcc 
cccatcatt ggctccccc ctccacgtg gcctgtgcc 
gacaacatc cccaaccgc tatgacatc ctccagatg 
ctcctcaaa gctggcgct gaccccaac ctcaaagtc 
tacaacgac ctctacgac cacaattcg caactacgg 
cccgttcta gtggaatat gttgccagt aataccaac 
cctagcctt gctgtggtc aacctcctg attcgctat 
ggagccaaa gtggtgatg aaaacgcaa tttcgggac 
cctgacggt atcctcaat tccctccaa aacgttatc 
tcggccaaa tgtgactca attttcttt ctcttgctt 
gaagcgagc gaatcgttc gatgtttgc atgattcgg 
agaaactcg gttataacg cctgagcag aaggcgacg 
cttttggag ctggccaag tacccgttg agtttgagg 
aggcaagtg agggtgttt ttgaggagg cttttggga 
gggaataag ctcattgat tcggtgccg agcttcgag 
ttgcccaaa tgtttggag aagtatcta ctctttgac 
tatagctga ttggatttt gggccaatt ttttgatcc 
cttgattcc gatttgttg gtattacgc gttttgtaa 
cctttcgtt aggctgtag ttttatata tttttatcc 
ttatcgttt tgttgtcaa atttatata tttgtaatc 
accgaaata aaatattta aaaataa

    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