Status
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Gene information
General information
TC031235
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.

TC012069,TC012070 		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_007424.3: 6765853..6768839
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
    		TC031235
    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
    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
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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_01924

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 11.11% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    Adult morphology
    elytra partially colour lighter - Number of animals showing the phenotype: 3


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC031235 RA
      MSEEVIFTL FYLILSFCI IYPPVEFVS AGFTIPALF 
SRVLGSEDE NFVSYHIKR TIVTLGVYS LLPLGYITA 
LFASEYFQD VSSLIIDGS LFWKAFFTT SLALPILAL 
YQIRNWIID DFKHHPIAV NLAKFCNNN NRDWKSVAG 
DINTEFRRV DKICVQTSS VIKVIATEN WILKVKPFT 
ISLAHQSDA SLVVQKADT HRISLQTTN ETQYLNIEV 
KSARVGVET FIIRINASD FKDLEDRIA RDITILPNV 
KFHKSVTEQ FVDVFKETI KNNARYETR EELDQCIGC 
MQTRPSVKL QKLCGDNAG GNEGCTTCY CKPMWCVDC 
MAKWFASRQ ESDQQSTWL SSKCTCPMC RAKFCILDV 
SLLESIDVE E
    CDS sequence
    • >TC031235 RA
      atgtccgaa gaggtgatt ttcacctta ttttaccta 
attttaagc ttctgtatt atctacccc cctgtcgag 
ttcgtgtct gccggcttc accatccct gcgctcttc 
agccgagtg ttgggctcc gaggacgaa aacttcgta 
agttaccac ataaagcgc acaatcgta acattgggg 
gtgtattca ctgttgcct ttggggtac atcaccgcc 
ctctttgcc tcggagtat ttccaagac gttagttct 
ttgataatc gacggttct ctcttttgg aaagcgttt 
ttcacgacc agtctggcg ttgccaatt ttggcgctc 
tatcagatt aggaactgg ataatcgac gattttaaa 
caccacccg atcgcggtc aatttggcc aagttttgc 
aacaataat aacagggat tggaaaagt gtcgccggt 
gacatcaac accgaattt agacgcgtt gataaaatc 
tgcgtccaa acgagctcg gtgattaaa gtgatagcc 
accgaaaat tggattttg aaagtgaaa ccctttacg 
atttcactg gcgcatcaa agcgacgcc agtttagtg 
gtccagaaa gctgacacg caccggatt tcgctccaa 
acgaccaac gaaacgcaa tacttaaac atcgaagtt 
aagtcggcc cgagtcggt gtcgagacg tttattatc 
cgcattaat gcctcggat ttcaaggac ttggaagac 
agaatagcg agagatatc accattttg cccaacgtc 
aagttccat aaatctgtg accgagcaa ttcgttgac 
gtcttcaag gagactatt aaaaataac gcgcgctac 
gagactaga gaggagctg gaccaatgt attgggtgc 
atgcagacg cgccccagc gtcaagttg cagaagctg 
tgtggggat aacgcgggc gggaatgag ggctgtacg 
acttgctat tgcaagccg atgtggtgt gttgattgc 
atggcgaaa tggttcgct tcgagacag gagagcgac 
cagcagagt acgtggctg tcgtccaag tgcacgtgt 
ccgatgtgc agggcgaag ttttgcatt ttagatgtg 
tcgctactt gagagtatc gacgttgag gaataa
    mRNA sequence
    • >TC031235 RA
      tttatttac gttattgaa taaataatt gttttattt 
agtccgttc attatgtcc gaagaggtg attttcacc 
ttattttac ctaatttta agcttctgt attatctac 
ccccctgtc gagttcgtg tctgccggc ttcaccatc 
cctgcgctc ttcagccga gtgttgggc tccgaggac 
gaaaacttc gtaagttac cacataaag cgcacaatc 
gtaacattg ggggtgtat tcactgttg cctttgggg 
tacatcacc gccctcttt gcctcggag tatttccaa 
gacgttagt tctttgata atcgacggt tctctcttt 
tggaaagcg tttttcacg accagtctg gcgttgcca 
attttggcg ctctatcag attaggaac tggataatc 
gacgatttt aaacaccac ccgatcgcg gtcaatttg 
gccaagttt tgcaacaat aataacagg gattggaaa 
agtgtcgcc ggtgacatc aacaccgaa tttagacgc 
gttgataaa atctgcgtc caaacgagc tcggtgatt 
aaagtgata gccaccgaa aattggatt ttgaaagtg 
aaacccttt acgatttca ctggcgcat caaagcgac 
gccagttta gtggtccag aaagctgac acgcaccgg 
atttcgctc caaacgacc aacgaaacg caatactta 
aacatcgaa gttaagtcg gcccgagtc ggtgtcgag 
acgtttatt atccgcatt aatgcctcg gatttcaag 
gacttggaa gacagaata gcgagagat atcaccatt 
ttgcccaac gtcaagttc cataaatct gtgaccgag 
caattcgtt gacgtcttc aaggagact attaaaaat 
aacgcgcgc tacgagact agagaggag ctggaccaa 
tgtattggg tgcatgcag acgcgcccc agcgtcaag 
ttgcagaag ctgtgtggg gataacgcg ggcgggaat 
gagggctgt acgacttgc tattgcaag ccgatgtgg 
tgtgttgat tgcatggcg aaatggttc gcttcgaga 
caggagagc gaccagcag agtacgtgg ctgtcgtcc 
aagtgcacg tgtccgatg tgcagggcg aagttttgc 
attttagat gtgtcgcta cttgagagt atcgacgtt 
gaggaataa attgttgct taattttaa ctgtattat 
ttcttgata aggttttat ctggagttg cctgaacga 
gattgctaa tttggaaaa taaaaattt atttttaaa

    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