Status
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Gene information
General information
TC011236 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_007425.3: 389302..393929
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
    		TC011236
    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
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04999

    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: 40.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 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: 40.0% (includes death as larva, prepupa, pupa, adult)

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

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011236 RA
      MSAFFWYDY LIFFIVLAI SSCTGIYYG CFGTKQKTI 
KEYLLGGKN MATWPIGIS VAVSHFSAI TIMGAPSDI 
YKFGAYYTY STIGMALLG LISIFVFFP VFFKLQVTT 
IYEYLEKRF DHKTKVFAS FLFIVGEVV IVSVSIYAP 
SLALSAVTG IHVYYIIIC VFGICIFYT TIGGLKTVV 
WTDIFQSGV ILLSMFIIC VIGLNTTGN FSTLWKTAL 
DGGRLDILN FDVDPTLRD SFWTFVIGF TFHCTYYVS 
LSQSGVQKY LALATFRDC IWAVVFYVI TMEIVELFC 
VFLGLLAYG HYANCDPFT TGKIQRHEQ LLPYYVTEI 
AGHIPGVTG FTLVGLFCA TMSTISSSL NAISGVVYK 
DCLSRFLKK DITEKASGR ILRVIVVIT GILSMLLIF 
VLQHLGDIL PVAVSGASI GSGPILGVF FLGFLFPQA 
NAKGAFYGA IVSFVFQTF VLIVSKMYR YKKIIVDVT 
LPFSVSGCW TNGSLASNS TLSNGFSSP NNVTINSEL 
SHYYNCMLG LIVTVIVGL IISYLTNKN DPPVDKELI 
SPVVRRFVK KDNKPEIDS RELKALMTK EYNTQGLEK
    CDS sequence
    • >TC011236 RA
      atgtctgcc ttcttctgg tacgactat ctaattttc 
ttcatagta ctagctatc agttcctgc accggaatt 
tattatggc tgcttcgga accaagcaa aaaacaatc 
aaagagtac cttttggga ggcaaaaac atggctact 
tggccgatc ggaatttcg gtagctgta agccacttt 
tctgcaatt accataatg ggggcaccg tccgatatt 
tacaaattt ggggcatat tacacctac agtacgatc 
ggtatggca ctgctggga ctgatttca atttttgtc 
tttttcccc gtttttttc aaactgcaa gttaccacc 
atttatgaa tatttggaa aaacgcttc gatcacaaa 
accaaagtt ttcgcgtca tttttgttt attgtgggg 
gaggttgtt atcgtttcg gttagcatt tatgcaccg 
tctttggca ctttcagca gttactggg attcatgtt 
tattacata attatttgt gtgtttggc atttgtatt 
ttctatact acaatcgga ggcctaaaa accgtcgtt 
tggactgat attttccaa agtggagtt attctctta 
tctatgttt ataatttgt gtaatcggt ctaaatacc 
actggaaat ttttcaacg ctgtggaaa acagcactc 
gacggtgga agactcgat atcttgaat tttgatgta 
gatccaaca cttcgtgat agtttttgg acatttgtg 
attggtttt acgtttcat tgtacatat tatgtaagt 
ctttcacaa tctggagtt caaaagtac ttggcacta 
gcgactttt cgtgactgt atttgggca gtggtattt 
tatgtgata acaatggaa atagtggaa ctattttgc 
gtttttctg ggtttgctg gcgtacgga cattatgca 
aattgtgat cctttcact actggaaaa atacaacgc 
catgagcag ttactgcct tattacgtt acggaaatt 
gctggacat attccagga gttaccgga tttacttta 
gttggattg ttctgtgca acaatgagt acgatatct 
tcaagtctg aacgccatc tctggtgtc gtttacaaa 
gattgcctt tcgcgattt ttgaaaaag gatattaca 
gaaaaagcg tctggcaga attttgaga gtgatcgtt 
gtaattact ggtatcctg agcatgctt ttaatattt 
gttttgcaa cacttgggt gatattctt cctgtcgca 
gtcagtggt gcttccata ggctccgga ccaatatta 
ggagtattt tttctaggt tttcttttc ccacaagct 
aacgccaag ggtgccttt tacggagct attgtttca 
tttgtattc caaaccttc gtactcatt gtctcaaaa 
atgtatcgg tacaaaaaa atcattgtg gatgttact 
ttaccattt tctgtaagc ggatgttgg accaatggt 
tctctggcg agtaacagt acactttct aatggtttc 
agttcgccc aacaacgtt acaataaat tcggagtta 
tcacattat tacaactgc atgttaggg cttattgtt 
acggtaatc gtgggatta attatcagt tatttaaca 
aacaaaaat gatccccca gttgataaa gaattaatt 
agtcctgta gttcgtcgt tttgtgaag aaagacaac 
aaacctgaa attgatagt cgagagctg aaagctcta 
atgactaaa gaatacaat acacaagga cttgaaaaa 
tga
    mRNA sequence
    • >TC011236 RA
      aactactac tacaactac gttatagaa taataatta 
ctatgaaaa cgaatcatg tctgccttc ttctggtac 
gactatcta attttcttc atagtacta gctatcagt 
tcctgcacc ggaatttat tatggctgc ttcggaacc 
aagcaaaaa acaatcaaa gagtacctt ttgggaggc 
aaaaacatg gctacttgg ccgatcgga atttcggta 
gctgtaagc cacttttct gcaattacc ataatgggg 
gcaccgtcc gatatttac aaatttggg gcatattac 
acctacagt acgatcggt atggcactg ctgggactg 
atttcaatt tttgtcttt ttccccgtt tttttcaaa 
ctgcaagtt accaccatt tatgaatat ttggaaaaa 
cgcttcgat cacaaaacc aaagttttc gcgtcattt 
ttgtttatt gtgggggag gttgttatc gtttcggtt 
agcatttat gcaccgtct ttggcactt tcagcagtt 
actgggatt catgtttat tacataatt atttgtgtg 
tttggcatt tgtattttc tatactaca atcggaggc 
ctaaaaacc gtcgtttgg actgatatt ttccaaagt 
ggagttatt ctcttatct atgtttata atttgtgta 
atcggtcta aataccact ggaaatttt tcaacgctg 
tggaaaaca gcactcgac ggtggaaga ctcgatatc 
ttgaatttt gatgtagat ccaacactt cgtgatagt 
ttttggaca tttgtgatt ggttttacg tttcattgt 
acatattat gtaagtctt tcacaatct ggagttcaa 
aagtacttg gcactagcg acttttcgt gactgtatt 
tgggcagtg gtattttat gtgataaca atggaaata 
gtggaacta ttttgcgtt tttctgggt ttgctggcg 
tacggacat tatgcaaat tgtgatcct ttcactact 
ggaaaaata caacgccat gagcagtta ctgccttat 
tacgttacg gaaattgct ggacatatt ccaggagtt 
accggattt actttagtt ggattgttc tgtgcaaca 
atgagtacg atatcttca agtctgaac gccatctct 
ggtgtcgtt tacaaagat tgcctttcg cgatttttg 
aaaaaggat attacagaa aaagcgtct ggcagaatt 
ttgagagtg atcgttgta attactggt atcctgagc 
atgctttta atatttgtt ttgcaacac ttgggtgat 
attcttcct gtcgcagtc agtggtgct tccataggc 
tccggacca atattagga gtatttttt ctaggtttt 
cttttccca caagctaac gccaagggt gccttttac 
ggagctatt gtttcattt gtattccaa accttcgta 
ctcattgtc tcaaaaatg tatcggtac aaaaaaatc 
attgtggat gttacttta ccattttct gtaagcgga 
tgttggacc aatggttct ctggcgagt aacagtaca 
ctttctaat ggtttcagt tcgcccaac aacgttaca 
ataaattcg gagttatca cattattac aactgcatg 
ttagggctt attgttacg gtaatcgtg ggattaatt 
atcagttat ttaacaaac aaaaatgat cccccagtt 
gataaagaa ttaattagt cctgtagtt cgtcgtttt 
gtgaagaaa gacaacaaa cctgaaatt gatagtcga 
gagctgaaa gctctaatg actaaagaa tacaataca 
caaggactt gaaaaatga aatttttat tgattctct 
gaatatcac attataata atttattat gaacaatta 
acaaataca tatgcacac acaataatt tttgataat 
aaagttttg taaaatca

    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