Status
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Gene information
General information
TC002624 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_007418.3: 21045480..21085761
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
    TC002624
    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
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    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_00415

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    legs segment partially distalfused - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs tibiotarsus partially shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    remarks: later than schedule, hours 24
    Pupal morphology
    remarks: later than schedule, hours 24
    Adult morphology
    remarks: later than schedule, hours 24
    Fertility
    egg production: number <50% of expected -
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 2
    remarks: later than schedule, hours 24
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002624 RA
      MVASKELYF PLCGDNTSL PLRGGVTGR RRVCLSAAW 
      ADPPTRRER RRAICSWSV GYGTLTEQE ESPVKQDLL 
      TKKGKVADN ATLLEPRGR RLVTSIATT HASPPASRR 
      SRSKVDLLA MPGIKTLVN RRRNSGSET QTPLVKQNG 
      SSGNLIKPA ASLASLRKY ETVLALTGV LRSSSSSSS 
      VEPLQPVNR LRVPPQESA SRFCSRCSS ILTLASTSR 
      YSLNSSTGG FVPIHKETL LLCKLCLAE VPSKDACCI 
      ADCKCSFCA ECMRVYVEF EIAQGAYDI SCPDAQCPS 
      KGVLNEEEI KRLAGEDLF EKHNKYRLN REIELDKNR 
      TWCPRAGCE TVCNLCPTQ QCHPQSVHC PSCTTDFCS 
      NCKLEWHEG LTCEDNSKK LAKEGKVEE PGISFNSDL 
      IKCCPMCNV PIEKDEGCA QMMCKRCKH VFCWYCLAS 
      LDDDFLLRH YDKGPCKNK LGHSRASVI WHRTQVIGI 
      FAGFGILLL VASPLLLLA APCIVCCKC RVCNAGTTK 
      LDNEEEAPV EES
    CDS sequence
    • >TC002624 RA
      atggtggcg tcaaaagaa ctctacttt ccactctgt 
      ggcgataat acatcattg ccattacgt ggaggtgta 
      accggaaga cgaagagtg tgtttgagt gcagcctgg 
      gctgatcca ccaacacga agagaaaga cgtcgagca 
      atttgctca tggtcggtc ggatacggt acactcacg 
      gaacaagag gagtcgcca gtgaaacaa gacttgctt 
      acaaaaaaa ggaaaagtg gctgacaac gccacattg 
      ctggaaccg cggggccgc cgtctagtc acctcgatc 
      gccaccacc catgcatct cctccggcg tctcgccgg 
      tcccgcagc aaagtggat cttttggcg atgcccggc 
      ataaaaacg ctagtaaat cgtcgacga aacagcggt 
      tcggaaacg cagacaccc ctagtgaaa caaaatgga 
      agctccggc aacctcatc aagccggcc gccagtttg 
      gccagtttg cggaaatac gagactgta ttggcgctc 
      actggagtg ctccggtcg tcgtcttcg tcgagcagt 
      gtcgagccc ttgcagcct gtcaacaga ctcagagta 
      cctccgcaa gagtccgcc tctcggttt tgttcgcgc 
      tgctcgagc atactcacc ttagcgtcg acgtcgcga 
      tattcgctg aattcgtcc acggggggc tttgttccc 
      atacacaaa gaaacgcta ctactttgc aaactctgt 
      cttgcggaa gtgccttcg aaggatgcg tgctgtatt 
      gcggactgc aagtgctcc ttttgtgca gagtgcatg 
      cgagtttat gtcgaattc gagatagca caaggagct 
      tacgacatt tcatgcccc gacgcccag tgtccatcc 
      aaaggggtt ttaaacgaa gaagagatc aaaagactg 
      gctggagaa gatttattt gaaaaacac aacaagtac 
      agattaaat agagaaata gaattagat aagaatcgc 
      acatggtgc ccccgggcc ggttgcgag accgtctgc 
      aacctctgc cccactcaa caatgtcat cctcaaagc 
      gtccactgc cccagttgc acaaccgac ttctgcagc 
      aactgcaaa ttggagtgg cacgaaggc ctgacctgc 
      gaggataac agcaaaaag ttggcgaag gaagggaaa 
      gttgaagag ccgggaata tctttcaat tcagatctc 
      attaaatgc tgccccatg tgtaatgtt cctattgaa 
      aaagacgaa ggctgtgcg caaatgatg tgtaaacgg 
      tgcaaacac gtcttttgc tggtactgt ctcgccagt 
      ctcgatgac gattttttg ctccggcac tacgacaag 
      ggaccgtgt aaaaacaag ctgggtcat tctcgggct 
      tcagtgatc tggcaccgg actcaagtt attgggatt 
      ttcgccggc ttcggaatt ttgcttctt gtcgcatcg 
      cctttgctt ctgttagcc gcaccgtgc attgtttgc 
      tgcaagtgc cgagtgtgt aatgcaggg accactaaa 
      ttagacaac gaagaagag gcgcccgtt gaagaatct 
      tga
    mRNA sequence
    • >TC002624 RA
      tatcagttg gaaaacagt aaggactag aggtcagaa 
      cgtggcagt agtcgagta gtggtttgt tcagctgaa 
      cgtgaattt agtaaacaa aaactaaat aggtggata 
      gatacctga acgatgtct atcaaatca gtttttgaa 
      ctgtgattg gtatcaggt gtggcgcag tgattttcg 
      gtgactatt tcaagctct tttacccaa atctaaact 
      aggacgagt aatttctca gaagtacct tggattgtg 
      cattacaag aatacacaa tggtggcgt caaaagaac 
      tctactttc cactctgtg gcgataata catcattgc 
      cattacgtg gaggtgtaa ccggaagac gaagagtgt 
      gtttgagtg cagcctggg ctgatccac caacacgaa 
      gagaaagac gtcgagcaa tttgctcat ggtcggtcg 
      gatacggta cactcacgg aacaagagg agtcgccag 
      tgaaacaag acttgctta caaaaaaag gaaaagtgg 
      ctgacaacg ccacattgc tggaaccgc ggggccgcc 
      gtctagtca cctcgatcg ccaccaccc atgcatctc 
      ctccggcgt ctcgccggt cccgcagca aagtggatc 
      ttttggcga tgcccggca taaaaacgc tagtaaatc 
      gtcgacgaa acagcggtt cggaaacgc agacacccc 
      tagtgaaac aaaatggaa gctccggca acctcatca 
      agccggccg ccagtttgg ccagtttgc ggaaatacg 
      agactgtat tggcgctca ctggagtgc tccggtcgt 
      cgtcttcgt cgagcagtg tcgagccct tgcagcctg 
      tcaacagac tcagagtac ctccgcaag agtccgcct 
      ctcggtttt gttcgcgct gctcgagca tactcacct 
      tagcgtcga cgtcgcgat attcgctga attcgtcca 
      cggggggct ttgttccca tacacaaag aaacgctac 
      tactttgca aactctgtc ttgcggaag tgccttcga 
      aggatgcgt gctgtattg cggactgca agtgctcct 
      tttgtgcag agtgcatgc gagtttatg tcgaattcg 
      agatagcac aaggagctt acgacattt catgccccg 
      acgcccagt gtccatcca aaggggttt taaacgaag 
      aagagatca aaagactgg ctggagaag atttatttg 
      aaaaacaca acaagtaca gattaaata gagaaatag 
      aattagata agaatcgca catggtgcc cccgggccg 
      gttgcgaga ccgtctgca acctctgcc ccactcaac 
      aatgtcatc ctcaaagcg tccactgcc ccagttgca 
      caaccgact tctgcagca actgcaaat tggagtggc 
      acgaaggcc tgacctgcg aggataaca gcaaaaagt 
      tggcgaagg aagggaaag ttgaagagc cgggaatat 
      ctttcaatt cagatctca ttaaatgct gccccatgt 
      gtaatgttc ctattgaaa aagacgaag gctgtgcgc 
      aaatgatgt gtaaacggt gcaaacacg tcttttgct 
      ggtactgtc tcgccagtc tcgatgacg attttttgc 
      tccggcact acgacaagg gaccgtgta aaaacaagc 
      tgggtcatt ctcgggctt cagtgatct ggcaccgga 
      ctcaagtta ttgggattt tcgccggct tcggaattt 
      tgcttcttg tcgcatcgc ctttgcttc tgttagccg 
      caccgtgca ttgtttgct gcaagtgcc gagtgtgta 
      atgcaggga ccactaaat tagacaacg aagaagagg 
      cgcccgttg aagaatctt gatgtgttt tacagtgaa 
      ctagcttag tctttggga aacggcaaa gaaaaatac 
      aagcgttgt ttttctgtg gagtttcct tgctgaagt 
      tttctctag tctaacttt cgttgcata atggccttt 
      gtccaaaca tcactgagt tgttttata ggttgaagt 
      ttaaacatg gacggaatc tgtgataga actgtgatt 
      atgaataac cgtctgtgt cttggactt agttacata 
      atttattta atttgtttt atttgctga acaatgaat 
      atactacgt tttaaatta gctgttgat tagaatgct 
      gtgatattt aagggaaaa acgtattag acgaaagca 
      gacttcaat aggataagc aattttaat ttatattct 
      cggcaagtt caatcgttt atttgcagt attctagta 
      cacagcgta tggagagtg atttagggc cttaaaaag 
      tactgtaca cttttattg tttgactgt gcagtctcc 
      tgagttttt gttaatttc ttagtcacg gcttgaacc 
      tacacagtt actttttaa tggaggaca aattgtgaa 
      taagatgat aatataaga tacttattt aaataatta 
      gttattcat aaaatatta tattagtgt tgatccttg 
      tcattttac aaatgactt tgagttttt tattacctg 
      aaattgttt gattttttt tatgttttc cagtaatcg 
      aataataaa cacttaaac gattt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY