Status
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Gene information
General information
TC012376 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: 5833559..5850218
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
    		TC012376
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01973

    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: 50.0% (includes death as pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: - Number of animals showing the phenotype: 3
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (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: 3 (11 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection


    Pupal morphology
    head slightly shape irregular - Number of animals showing the phenotype: 3

    wings shortened - Number of animals showing the phenotype: 3

    legs potentially shortened - Number of animals showing the phenotype: 3
    legs orientation irregular - Number of animals showing the phenotype: 3

    wings orientation irregular - Number of animals showing the phenotype: 3
    head slightly shape irregular - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    wings shortened - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection


    wings orientation irregular - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    legs potentially shortened - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    prothoracic leg shortened - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    legs orientation irregular - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012376 RA
      MDGVGGRRR IAAKSSAED QALDQIAKE AEARLWAKR 
QARAEAREI RMRELERQQ KEQEENADR QFDMLAEPM 
ARTARTVTA GSRYLSSRR SSEDSLEDG GSLRDLRNE 
LKEYEEKFR KAMIANAQL DNDKTSLTY QLELLKDRL 
EELEEEHSQ LKREHREKC RDFDQLKRL CAKLKDDLA 
VTRAELEER DQLISEKGL VIVGEDSIN EEEQRNGDV 
SLSSIGTPK KALVSVENA QLLQSAGEG SLDVRLAKL 
MKEKGELQD QISHLKLEL EEERSKRKK SSAGGTLNG 
PSSDPDLDE IDIQREASK QLGDYKFRA QKAEQDVAT 
LQATVARLE SQVIRYKAA AEVSEKAEE ALKAEKRKL 
QREAREAQS RAEELETSN THLLKRLDK LKNAKSALL 
KEL
    CDS sequence
    • >TC012376 RA
      atggacggc gttggcggc cgacgacgt atcgcagcc 
aagtcgtct gcagaggac caagcgctt gaccaaatc 
gccaaagag gcggaagca cgtttgtgg gccaaaaga 
caggcccga gctgaagct agagagata cgtatgcgc 
gaactggag aggcaacag aaagaacaa gaggaaaat 
gccgaccga caattcgat atgttggca gaaccgatg 
gccaggact gcgaggacg gttactgca gggagcagg 
tatctctcc agcaggagg agctccgag gactcgctg 
gaggacggg ggcagtctc agggatttg cggaacgaa 
ctaaaagag tatgaggag aagtttcgt aaggcgatg 
atcgccaac gcccaactc gataacgac aaaacgtct 
ctcacatat caactggaa ctgcttaag gataggtta 
gaagaacta gaagaggag cattcgcag ttgaagcga 
gagcaccgg gaaaagtgc cgcgacttc gaccaatta 
aaacggttg tgcgcaaaa ttaaaagat gatttggct 
gtgactcgg gctgaactc gaagaacgc gatcagttg 
ataagcgag aagggttta gtcatcgtc ggcgaggac 
tcgatcaac gaagaggaa caaaggaac ggcgatgtc 
agtcttagt agtataggt acaccgaaa aaggcttta 
gttagtgta gaaaatgcc cagctgttg caaagcgcg 
ggcgaaggc agtctggac gtgcgatta gcgaaattg 
atgaaagaa aaaggcgaa ctgcaggat caaattagc 
catttaaaa ttagaatta gaagaggag cgaagcaag 
cggaaaaaa tcgagtgcg ggcggcacg ttgaacggg 
ccgtcgtcg gaccccgac ttggacgaa atagacatt 
caaagagag gcgagtaaa cagctcggg gattacaaa 
ttccgggcg caaaaggcc gagcaagac gtcgccacc 
ttgcaggcg accgttgct cggctcgag agccaagtc 
attaggtac aaggctgcg gccgaagtc tcggagaag 
gccgaggag gccctaaag gccgaaaaa cgcaagctg 
caaagagag gcacgggag gcgcagagt cgggccgag 
gaattggaa acatcaaac acacactta ctgaaacgt 
ttagataaa ttgaagaat gcgaaatca gcgttactg 
aaagaactt tga
    mRNA sequence
    • >TC012376 RA
      cgaaaaaga aatgtcgtc acaaattta cacatgtgt 
agaattttg catataact tgcaatatt tcgtaagtt 
gccctgtga taagataaa atagtgtct cgtccttgt 
caagaaatt atcatgtgt tgtgttttc ttttgatgt 
gtgtgtgat aagaattcg taaatctct ttgtaatcg 
ttacacccc tcaacgtct cgagaggtc gatcgaagt 
aattgattt tgtctggat ttgcgttac gagccgata 
atgattatg aaacaggag gaaattaga tgaaccgta 
agaattgcg agtctggtg tcggtgttg tcctctccg 
gtaactcct cgccatgga cggcgttgg cggccgacg 
acgtatcgc agccaagtc gtctgcaga ggaccaagc 
gcttgacca aatcgccaa agaggcgga agcacgttt 
gtgggccaa aagacaggc ccgagctga agctagaga 
gatacgtat gcgcgaact ggagaggca acagaaaga 
acaagagga aaatgccga ccgacaatt cgatatgtt 
ggcagaacc gatggccag gactgcgag gacggttac 
tgcagggag caggtatct ctccagcag gaggagctc 
cgaggactc gctggagga cgggggcag tctcaggga 
tttgcggaa cgaactaaa agagtatga ggagaagtt 
tcgtaaggc gatgatcgc caacgccca actcgataa 
cgacaaaac gtctctcac atatcaact ggaactgct 
taaggatag gttagaaga actagaaga ggagcattc 
gcagttgaa gcgagagca ccgggaaaa gtgccgcga 
cttcgacca attaaaacg gttgtgcgc aaaattaaa 
agatgattt ggctgtgac tcgggctga actcgaaga 
acgcgatca gttgataag cgagaaggg tttagtcat 
cgtcggcga ggactcgat caacgaaga ggaacaaag 
gaacggcga tgtcagtct tagtagtat aggtacacc 
gaaaaaggc tttagttag tgtagaaaa tgcccagct 
gttgcaaag cgcgggcga aggcagtct ggacgtgcg 
attagcgaa attgatgaa agaaaaagg cgaactgca 
ggatcaaat tagccattt aaaattaga attagaaga 
ggagcgaag caagcggaa aaaatcgag tgcgggcgg 
cacgttgaa cgggccgtc gtcggaccc cgacttgga 
cgaaataga cattcaaag agaggcgag taaacagct 
cggggatta caaattccg ggcgcaaaa ggccgagca 
agacgtcgc caccttgca ggcgaccgt tgctcggct 
cgagagcca agtcattag gtacaaggc tgcggccga 
agtctcgga gaaggccga ggaggccct aaaggccga 
aaaacgcaa gctgcaaag agaggcacg ggaggcgca 
gagtcgggc cgaggaatt ggaaacatc aaacacaca 
cttactgaa acgtttaga taaattgaa gaatgcgaa 
atcagcgtt actgaaaga actttgaca atcatcgag 
tagttagtc ggatgtcgg aaggaacgt gcagtgagt 
tgtgaaacg gaaccagcc taatagtca taatttcat 
gaaaaatta attttaatt taactcttt taacaaatt 
ttaacacat gaattcgtc attttaaag tgttgttta 
tttatttga gttttaaac cttgtgtaa atctgtttt 
gtcaaatta ttttgtatt tatttgata gagataaga 
ttctatttt gtacatatg taggtttgt aaaaattat 
ctcaggatc gttatatcc gtaccaatt gcttgcgaa 
attgcaata tctaccagc aacaaaatt gcttcttgt 
actatatca ggtgatact aatacttaa cttagctaa 
aaaatcaat atgtagctc aatttatac aaaagttag 
aaatagatg tattctgta acaagtttt gttagctct 
ctggaacaa gctcaacaa tgtggcgat gttttagcc 
accttgaag gaattacca aacgtcgtg tgatgcgat 
ttttacaaa gcaagctaa cactagaaa tttgtacat 
atgaaatat gtgattttg tgtatattc ttttggtaa 
aaggtattt caagaaata aactaaccg ctcctgcgg 
gcgcagcag gggttgagt caagccaaa ttcactaaa 
cctctcacg cgcgc

    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