Status
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Gene information
General information
TC013337 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_007420.3: 10922448..10924054
Sequence information
Transcripts / Proteins (2) 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
    		TC013337
    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_10723

    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: 0.0% (includes death as pupa, adult)

    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): less than 30%

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

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013337 RA
      MLNTFRARN NCEQEAKFV QDRIVSVER TIGELCHVF 
GQYSRKAAR LRDKGDEIA KVTLEHAEA EQLNRSLSL 
ALENFADCI SLLSSYGDL RVQNLDSKV IKEFARYED 
ICKHAKDEV KQIYNAREK EIARKRQLD RIKERNPRN 
RQQIIQAET ELVKASAEF SKTLRNLEE KSTEFERQK 
LHDVKSILL DFVAIEMGY HARALEVLT NAYKAVNSM 
DEEADLQDF QKTSGKVEA EFKKSLRRP DSSRNVGSR 
SLFRSSNSL GSLKGLFTP NNKKPEGIP RKASKSEET 
LDSMKRSIS DTEDSLSDS ANVSENVSD TEEPSSPIR 
PRKPRK
    • >TC013337 RB
      MLNTFRARN NCEQEAKFV QDRIVSVER TIGELCHVF 
GQYSRKAAR LRDKGDEIA KVTLEHAEA EQLNRSLSL 
ALENFADCI SLLSSYGDL RVQNLDSKV IKEFARYED 
ICKHAKDEV KQIYNAREK EIARKRQLD RIKERNPRN 
RQQIIQAET ELVKASAEF SKTLRNLEE KSTEFERQK 
LHDVKSILL DFVAIEMGY HARALEVLT NAYKAVNSM 
DEEADLQEF KKSLRRPDS SRNVGSRSL FRSSNSLGS 
LKGLFTPNN KKPEGIPRK ASKSEETLD SMKRSISDT 
EDSLSDSAN VSENVSDTE EPSSPIRPR KPRK
    CDS sequence
    • >TC013337 RA
      atgttgaac acgttccgg gcgcggaat aattgcgaa 
caggaggct aaattcgtc caagaccgt attgtctca 
gtcgagcga acaatcggt gaattatgc cacgttttc 
gggcagtat tcccggaaa gcggcccgt ctgagagac 
aaaggggac gaaattgcc aaagtcacg ctcgaacac 
gctgaagcg gaacaacta aaccgatct ctaagccta 
gctttggag aattttgcc gactgtatc tcgcttttg 
agttcttac ggcgacctc agagtccag aatttggac 
agtaaagtg attaaagag tttgcacgc tatgaggac 
atttgtaaa catgccaaa gacgaagtt aagcaaatt 
tacaacgct agggagaaa gaaattgcg aggaaaaga 
cagctggat cggattaaa gaacgcaat ccgaggaat 
aggcaacaa attatccaa gctgagacc gagttagta 
aaggcgagt gccgagttt tcgaagact ttgcgtaac 
ttggaggaa aaaagcacg gagtttgag agacaaaaa 
ctgcacgat gttaagtcg attttgctc gactttgtt 
gcgatagaa atggggtac cacgcccgg gctctggag 
gtcttgacc aatgcctac aaagctgtg aattcgatg 
gacgaagag gccgactta caggacttt caaaaaact 
agtggaaag gtggaggcg gagtttaaa aagtcgctg 
cggcgcccg gacagttca cgcaacgtg ggttcgcgc 
agtcttttt cgctctagc aattcgctg ggttccctc 
aagggtctt tttaccccc aataacaaa aaaccagag 
gggattccc agaaaagcg tccaaaagt gaggaaacg 
ctcgactcc atgaaacgg agcatttcc gacactgag 
gacagcctc agcgacagt gcgaacgtc tctgagaat 
gtttccgac actgaggag ccctcgtcc cccatcaga 
ccgcggaag ccgcgcaaa tga
    • >TC013337 RB
      atgttgaac acgttccgg gcgcggaat aattgcgaa 
caggaggct aaattcgtc caagaccgt attgtctca 
gtcgagcga acaatcggt gaattatgc cacgttttc 
gggcagtat tcccggaaa gcggcccgt ctgagagac 
aaaggggac gaaattgcc aaagtcacg ctcgaacac 
gctgaagcg gaacaacta aaccgatct ctaagccta 
gctttggag aattttgcc gactgtatc tcgcttttg 
agttcttac ggcgacctc agagtccag aatttggac 
agtaaagtg attaaagag tttgcacgc tatgaggac 
atttgtaaa catgccaaa gacgaagtt aagcaaatt 
tacaacgct agggagaaa gaaattgcg aggaaaaga 
cagctggat cggattaaa gaacgcaat ccgaggaat 
aggcaacaa attatccaa gctgagacc gagttagta 
aaggcgagt gccgagttt tcgaagact ttgcgtaac 
ttggaggaa aaaagcacg gagtttgag agacaaaaa 
ctgcacgat gttaagtcg attttgctc gactttgtt 
gcgatagaa atggggtac cacgcccgg gctctggag 
gtcttgacc aatgcctac aaagctgtg aattcgatg 
gacgaagag gccgactta caggagttt aaaaagtcg 
ctgcggcgc ccggacagt tcacgcaac gtgggttcg 
cgcagtctt tttcgctct agcaattcg ctgggttcc 
ctcaagggt ctttttacc cccaataac aaaaaacca 
gaggggatt cccagaaaa gcgtccaaa agtgaggaa 
acgctcgac tccatgaaa cggagcatt tccgacact 
gaggacagc ctcagcgac agtgcgaac gtctctgag 
aatgtttcc gacactgag gagccctcg tcccccatc 
agaccgcgg aagccgcgc aaatga
    mRNA sequence
    • >TC013337 RA
      gcaaataaa aacaattca acaataatg ttgaacacg 
ttccgggcg cggaataat tgcgaacag gaggctaaa 
ttcgtccaa gaccgtatt gtctcagtc gagcgaaca 
atcggtgaa ttatgccac gttttcggg cagtattcc 
cggaaagcg gcccgtctg agagacaaa ggggacgaa 
attgccaaa gtcacgctc gaacacgct gaagcggaa 
caactaaac cgatctcta agcctagct ttggagaat 
tttgccgac tgtatctcg cttttgagt tcttacggc 
gacctcaga gtccagaat ttggacagt aaagtgatt 
aaagagttt gcacgctat gaggacatt tgtaaacat 
gccaaagac gaagttaag caaatttac aacgctagg 
gagaaagaa attgcgagg aaaagacag ctggatcgg 
attaaagaa cgcaatccg aggaatagg caacaaatt 
atccaagct gagaccgag ttagtaaag gcgagtgcc 
gagttttcg aagactttg cgtaacttg gaggaaaaa 
agcacggag tttgagaga caaaaactg cacgatgtt 
aagtcgatt ttgctcgac tttgttgcg atagaaatg 
gggtaccac gcccgggct ctggaggtc ttgaccaat 
gcctacaaa gctgtgaat tcgatggac gaagaggcc 
gacttacag gactttcaa aaaactagt ggaaaggtg 
gaggcggag tttaaaaag tcgctgcgg cgcccggac 
agttcacgc aacgtgggt tcgcgcagt ctttttcgc 
tctagcaat tcgctgggt tccctcaag ggtcttttt 
acccccaat aacaaaaaa ccagagggg attcccaga 
aaagcgtcc aaaagtgag gaaacgctc gactccatg 
aaacggagc atttccgac actgaggac agcctcagc 
gacagtgcg aacgtctct gagaatgtt tccgacact 
gaggagccc tcgtccccc atcagaccg cggaagccg 
cgcaaatga aacattcgc atgcttagt tctaattta 
ttaataaaa cggttcaat ggta
    • >TC013337 RB
      gcaaataaa aacaattca acaataatg ttgaacacg 
ttccgggcg cggaataat tgcgaacag gaggctaaa 
ttcgtccaa gaccgtatt gtctcagtc gagcgaaca 
atcggtgaa ttatgccac gttttcggg cagtattcc 
cggaaagcg gcccgtctg agagacaaa ggggacgaa 
attgccaaa gtcacgctc gaacacgct gaagcggaa 
caactaaac cgatctcta agcctagct ttggagaat 
tttgccgac tgtatctcg cttttgagt tcttacggc 
gacctcaga gtccagaat ttggacagt aaagtgatt 
aaagagttt gcacgctat gaggacatt tgtaaacat 
gccaaagac gaagttaag caaatttac aacgctagg 
gagaaagaa attgcgagg aaaagacag ctggatcgg 
attaaagaa cgcaatccg aggaatagg caacaaatt 
atccaagct gagaccgag ttagtaaag gcgagtgcc 
gagttttcg aagactttg cgtaacttg gaggaaaaa 
agcacggag tttgagaga caaaaactg cacgatgtt 
aagtcgatt ttgctcgac tttgttgcg atagaaatg 
gggtaccac gcccgggct ctggaggtc ttgaccaat 
gcctacaaa gctgtgaat tcgatggac gaagaggcc 
gacttacag gagtttaaa aagtcgctg cggcgcccg 
gacagttca cgcaacgtg ggttcgcgc agtcttttt 
cgctctagc aattcgctg ggttccctc aagggtctt 
tttaccccc aataacaaa aaaccagag gggattccc 
agaaaagcg tccaaaagt gaggaaacg ctcgactcc 
atgaaacgg agcatttcc gacactgag gacagcctc 
agcgacagt gcgaacgtc tctgagaat gtttccgac 
actgaggag ccctcgtcc cccatcaga ccgcggaag 
ccgcgcaaa tgaaacatt cgcatgctt agttctaat 
ttattaata aaacggttc aatggta

    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