Status
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Gene information
General information
TC032089
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.

TC000864,TC000865 		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_007417.3: 7304070..7351653
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
    		TC032089
    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_03093

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     larva partially not closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    head capsule not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head appendages random not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Maxilla mostly present.
    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment partially fused - 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
    • >TC032089 RA
      MLSVATLNV SRHAARGRQ THIVPMAVK HLIFALSLL 
IPAIAEAAM DVTVDIPKF TGPILNVTV PVGREAVLE 
CGVDNLSNF KISGPSDPI LHSDYKKQQ KYYVAWLRV 
DTQTILTIH SHVITKNHR IAVTHSEHR TWYLHIRDV 
RESDRGWYM CQINTDPMK SQIGYLDVV VPPDILDYP 
TSTDMVVRE GSNVSLRCA ATGSPEPTI AWRREGGES 
IPLGNGQEV PSIDGTTFN ISKVNRLHM GPYLCIASN 
GVPPSVSKR IMLRVHFPP MIWIQNQLV GAMEGQQIT 
LECHSEAYP RSINYWTMD DGNIISEGA KYEPVLVDN 
AYKVHMKLT IRSVSFADY GSYKCVAKN SLGETDGTI 
KLYHIPSPS TQKTTTSTT VSPINLSLE KDTSKQHSR 
PKESAPDPG TNEIFDPET TKERDLRLR SNPSETSQD 
HNIHDSFFF SAAIRPWMS CLWLVMIAV IFT
    CDS sequence
    • >TC032089 RA
      atgttgagc gtcgcgacg ctcaacgtc agtcggcat 
gcggcacgc ggtcggcaa actcatatc gttcccatg 
gctgttaaa cacttgatt ttcgcgctt tctttactc 
attccagcg atcgcggag gccgcaatg gacgtaaca 
gttgacatt ccaaagttc acgggtccc attctgaac 
gtaacggtt ccggtaggt agagaagcg gtcctcgag 
tgcggcgtc gacaactta tcaaatttt aagatttct 
ggcccttca gaccctata ctacattcg gattacaag 
aaacagcaa aagtactac gtggcgtgg ctgagagtg 
gacacacaa actattctc accattcac agtcacgta 
attacgaag aatcatcgt attgcggtc acccacagc 
gaacacagg acatggtat ctccatata cgagacgtc 
cgggagtcg gacaggggc tggtacatg tgccagatc 
aacaccgat cccatgaaa agccaaatt ggatatctg 
gacgtcgtc gttccgcca gacatcttg gactatccg 
acgagcact gatatggtg gtacgagaa ggatcaaat 
gtgagttta cgatgtgca gctaccgga tcgccggag 
ccgaccatc gcttggagg cgagaggga ggagaatct 
attccttta ggaaatgga caagaagtt cccagcatc 
gacggaaca acgttcaac ataagtaaa gtgaatagg 
ctccacatg ggcccatat ttgtgtata gcctccaac 
ggagtcccg ccatctgtt agcaaaagg atcatgctg 
agagtacat tttccgcca atgatctgg atacaaaat 
caactagtc ggagctatg gagggccag caaataact 
ttggagtgc cactcggaa gcgtatccg agatccatt 
aattactgg actatggat gatggcaac attatttca 
gaaggggcg aaatatgag ccggtgtta gtcgataac 
gcttacaag gtgcacatg aaactgacc attcgatcc 
gtgagcttc gctgattat ggatcatat aaatgtgtg 
gcgaaaaac tcacttgga gaaacagac ggaaccata 
aagctttat cacatccca tcaccgtcg acacaaaaa 
actacaact tcaacaaca gtgtctcct atcaactta 
tcactcgaa aaagacacg tcaaaacaa cacagccga 
ccgaaggaa tcggcccca gaccccggc accaatgaa 
atatttgat cctgaaaca acaaaagaa agagatcta 
cgtctaagg agtaacccc agcgaaacg agccaagac 
cacaatatc catgatagc ttcttcttc tcggcagca 
atcaggccc tggatgagt tgcttgtgg cttgtcatg 
attgctgtt attttcacc tga
    mRNA sequence
    • >TC032089 RA
      gttttgatg atgttgagc gtcgcgacg ctcaacgtc 
agtcggcat gcggcacgc ggtcggcaa actcatatc 
gttcccatg gctgttaaa cacttgatt ttcgcgctt 
tctttactc attccagcg atcgcggag gccgcaatg 
gacgtaaca gttgacatt ccaaagttc acgggtccc 
attctgaac gtaacggtt ccggtaggt agagaagcg 
gtcctcgag tgcggcgtc gacaactta tcaaatttt 
aagatttct ggcccttca gaccctata ctacattcg 
gattacaag aaacagcaa aagtactac gtggcgtgg 
ctgagagtg gacacacaa actattctc accattcac 
agtcacgta attacgaag aatcatcgt attgcggtc 
acccacagc gaacacagg acatggtat ctccatata 
cgagacgtc cgggagtcg gacaggggc tggtacatg 
tgccagatc aacaccgat cccatgaaa agccaaatt 
ggatatctg gacgtcgtc gttccgcca gacatcttg 
gactatccg acgagcact gatatggtg gtacgagaa 
ggatcaaat gtgagttta cgatgtgca gctaccgga 
tcgccggag ccgaccatc gcttggagg cgagaggga 
ggagaatct attccttta ggaaatgga caagaagtt 
cccagcatc gacggaaca acgttcaac ataagtaaa 
gtgaatagg ctccacatg ggcccatat ttgtgtata 
gcctccaac ggagtcccg ccatctgtt agcaaaagg 
atcatgctg agagtacat tttccgcca atgatctgg 
atacaaaat caactagtc ggagctatg gagggccag 
caaataact ttggagtgc cactcggaa gcgtatccg 
agatccatt aattactgg actatggat gatggcaac 
attatttca gaaggggcg aaatatgag ccggtgtta 
gtcgataac gcttacaag gtgcacatg aaactgacc 
attcgatcc gtgagcttc gctgattat ggatcatat 
aaatgtgtg gcgaaaaac tcacttgga gaaacagac 
ggaaccata aagctttat cacatccca tcaccgtcg 
acacaaaaa actacaact tcaacaaca gtgtctcct 
atcaactta tcactcgaa aaagacacg tcaaaacaa 
cacagccga ccgaaggaa tcggcccca gaccccggc 
accaatgaa atatttgat cctgaaaca acaaaagaa 
agagatcta cgtctaagg agtaacccc agcgaaacg 
agccaagac cacaatatc catgatagc ttcttcttc 
tcggcagca atcaggccc tggatgagt tgcttgtgg 
cttgtcatg attgctgtt attttcacc tgaagtgag 
ggtaccgtg taatataaa tgtaatata tcgttggcc 
tcgagttat ttttgtggg aaaattgaa ttccagtat 
tatttgcat tccggttag ttccaataa cagtcacgt 
gtaaataac taaaaactg taacaagta gccccattt 
tttgtttct aagtaaact aggattaag ctgaatgtt 
aagtgaggt atttttgta aataagtta ctccagatg 
tggcggtag tcggttaaa aaagttaaa ttgaaacgc 
ccaggtttt cctcctcct tttgcaata actaaatgt 
agaggctag tgaccagcc tgtatattt gtaaggact 
cctatgtgt tttgtgtac atatgaatt tcttgactg 
ttacagagt tgagactga gagttattt tattgtacc 
tctttatgt tggaaaatc tgtaattct tttaataaa 
atcttctaa tttac

    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