Status
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Gene information
General information
TC001637 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_007416.3: 1194611..1201873
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
    TC001637
    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_03225

    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: 25.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - 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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

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

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC001637 RA
      MANNLVKWW KTKFLNGYK QFSVECGDG KVSDTEELL 
      GRLGSEVDG NERLRSTTP PLPSQDETV PTPTPDDAS 
      NTPKKQPQH HLNFEEFSC DVSVEGGEK SKSGQERQE 
      FSFTLYDFD GYGKITKDD IAGLVTTIY EALGSSVKV 
      PHYGSKTIK VKLTVSPDQ RKHVSATII NQKDNNEEK 
      TQETSIRYK RDLNVTIRQ GINEKRKHG RRQSKPKTP 
      NKKHQCCNK HEEEDQENP FVSDDSSDA CSRISGNLT 
      SDEEEGECS DNERHKPKK HQKKCHRST SPRYTIPNL 
      FIKDANICN ENNCSKKTP KKRSGSLQR QELLEIIQA 
      NMDKNNLGF QTPRKHSNH VSTQTRQLE GPHKSQSKS 
      PKVSPSPLQ YLANIVDPT HFYVDLASL QNTTQLPQT 
      HCQYDKLID AVMCVSNKK ISLNKQKCR KHRVRNDLA 
      DIRYQFLQY PMTNDENKL NKPNKRTPK KSVSDVKKS 
      PHVVTGHTS SPHHLRHKN RQEDQARAM AQVVRWLEQ 
      EFSSNLNTK EKAKGNHFH STKEKTTSA PSSPGSGVE 
      RHEHHHVHE HIHHHYHHY QETPLVV
    CDS sequence
    • >TC001637 RA
      atggctaac aatttagtg aagtggtgg aaaacgaag 
      tttctcaac ggatataaa caattctca gtcgagtgt 
      ggcgatggt aaggtgtcc gatacggaa gaacttcta 
      ggccgatta gggtcagaa gttgacggt aatgaaagg 
      ttgagatca acaacacca cctttgcca tcgcaagac 
      gaaaccgtt cctacgcca acacccgac gatgcctca 
      aacacgccg aaaaagcag cctcaacac catctcaat 
      tttgaggaa ttttcctgt gacgtgtcg gtggaaggc 
      ggggaaaag tcaaagtcg gggcaggag cgacaggaa 
      ttttctttc acgctgtat gactttgat ggatacggg 
      aaaataact aaggatgac attgccggt ttagtaacg 
      acaatttac gaagcttta ggatcgtca gttaaagtg 
      ccccattac ggcagcaaa acaattaag gttaaactt 
      accgtatca cccgaccag cgtaagcac gtaagtgct 
      acaatcatc aaccaaaaa gacaataac gaggaaaaa 
      acgcaagaa actagtata cgatataaa agagactta 
      aacgtgacc ataagacaa ggtattaac gaaaaacgg 
      aaacacggt agaagacaa tcgaaacca aaaacacca 
      aataaaaag caccagtgt tgtaacaaa cacgaggaa 
      gaagaccaa gaaaatccc ttcgtatcg gatgacagc 
      tcggatgct tgcagtcga atatccgga aacttaacc 
      agcgacgaa gaggaagga gagtgttcg gataatgaa 
      cgacataaa ccaaaaaag catcaaaag aaatgtcac 
      agaagcacc agccctaga tatactata ccaaattta 
      tttataaaa gacgcaaat atctgcaac gaaaataac 
      tgctcaaag aaaacgccg aagaagagg tcgggctcc 
      ttgcagcgc caggagctg ctcgaaatc atacaggcc 
      aacatggac aagaataac ctaggtttt caaacgccg 
      agaaaacat tccaaccat gttagcacg cagacgcgt 
      cagctggag ggcccccac aagtctcag tcgaagagc 
      cccaaggtg tccccgtcc cccctgcag tacctggcg 
      aacatcgtg gacccgacg cacttctac gtggacttg 
      gcgtccctt cagaacaca acccaactc ccccaaacc 
      cactgccag tacgacaag ctgatcgac gccgtgatg 
      tgcgtgtcg aataaaaaa atctcgtta aacaaacaa 
      aagtgtcga aagcaccgc gttaggaac gacctcgcc 
      gatatccgg taccagttt ctccaatat ccgatgaca 
      aacgacgag aacaaactg aacaaaccg aacaaaaga 
      acgccaaaa aagagtgtt agtgatgtg aaaaagagc 
      ccccatgtc gtgacgggg cacacgtcc tcgccgcac 
      cacctgcgc cacaagaac cgccaggag gaccaggcc 
      cgcgccatg gcgcaggtg gtgcgctgg ctggagcag 
      gagttctcg tcgaatttg aacacgaag gagaaggcc 
      aaaggcaac cacttccac tccacgaag gagaagacc 
      accagcgcg ccctccagc cccggctcg ggggtcgag 
      cgccacgag caccaccac gtgcacgag cacatacac 
      caccactac caccactac caggaaacg ccgctggtg 
      gtatag
    mRNA sequence
    • >TC001637 RA
      tcagtgcag ctactggtg ttgttttgc gccgcgcca 
      atctctata gagtagggt gttgcacct ggctccttt 
      agttgcgta cacgtcgac caagtttta tctgccgtc 
      tcggctagt gcctgaacc gcatgagtt acaatgatg 
      ttccactgg agaacgtac tatagagcc ggtactctc 
      ttcaaggag ctagtagtg accagagtg gcagtgagg 
      gtaacgtcg caggctctc taacgtgtt gtgatgtga 
      ggactctgg tgatggaca tctggttgt tgatgcaca 
      attcacaga tggctaaca atttagtga agtggtgga 
      aaacgaagt ttctcaacg gatataaac aattctcag 
      tcgagtgtg gcgatggta aggtgtccg atacggaag 
      aacttctag gccgattag ggtcagaag ttgacggta 
      atgaaaggt tgagatcaa caacaccac ctttgccat 
      cgcaagacg aaaccgttc ctacgccaa cacccgacg 
      atgcctcaa acacgccga aaaagcagc ctcaacacc 
      atctcaatt ttgaggaat tttcctgtg acgtgtcgg 
      tggaaggcg gggaaaagt caaagtcgg ggcaggagc 
      gacaggaat tttctttca cgctgtatg actttgatg 
      gatacggga aaataacta aggatgaca ttgccggtt 
      tagtaacga caatttacg aagctttag gatcgtcag 
      ttaaagtgc cccattacg gcagcaaaa caattaagg 
      ttaaactta ccgtatcac ccgaccagc gtaagcacg 
      taagtgcta caatcatca accaaaaag acaataacg 
      aggaaaaaa cgcaagaaa ctagtatac gatataaaa 
      gagacttaa acgtgacca taagacaag gtattaacg 
      aaaaacgga aacacggta gaagacaat cgaaaccaa 
      aaacaccaa ataaaaagc accagtgtt gtaacaaac 
      acgaggaag aagaccaag aaaatccct tcgtatcgg 
      atgacagct cggatgctt gcagtcgaa tatccggaa 
      acttaacca gcgacgaag aggaaggag agtgttcgg 
      ataatgaac gacataaac caaaaaagc atcaaaaga 
      aatgtcaca gaagcacca gccctagat atactatac 
      caaatttat ttataaaag acgcaaata tctgcaacg 
      aaaataact gctcaaaga aaacgccga agaagaggt 
      cgggctcct tgcagcgcc aggagctgc tcgaaatca 
      tacaggcca acatggaca agaataacc taggttttc 
      aaacgccga gaaaacatt ccaaccatg ttagcacgc 
      agacgcgtc agctggagg gcccccaca agtctcagt 
      cgaagagcc ccaaggtgt ccccgtccc ccctgcagt 
      acctggcga acatcgtgg acccgacgc acttctacg 
      tggacttgg cgtcccttc agaacacaa cccaactcc 
      cccaaaccc actgccagt acgacaagc tgatcgacg 
      ccgtgatgt gcgtgtcga ataaaaaaa tctcgttaa 
      acaaacaaa agtgtcgaa agcaccgcg ttaggaacg 
      acctcgccg atatccggt accagtttc tccaatatc 
      cgatgacaa acgacgaga acaaactga acaaaccga 
      acaaaagaa cgccaaaaa agagtgtta gtgatgtga 
      aaaagagcc cccatgtcg tgacggggc acacgtcct 
      cgccgcacc acctgcgcc acaagaacc gccaggagg 
      accaggccc gcgccatgg cgcaggtgg tgcgctggc 
      tggagcagg agttctcgt cgaatttga acacgaagg 
      agaaggcca aaggcaacc acttccact ccacgaagg 
      agaagacca ccagcgcgc cctccagcc ccggctcgg 
      gggtcgagc gccacgagc accaccacg tgcacgagc 
      acatacacc accactacc accactacc aggaaacgc 
      cgctggtgg tatagcgct ggccgtggg tgcgcctag 
      aattacgag ggaccactt cggatgcct tagaggttc 
      aagttcctg atatttttt gaatcttga ctttgataa 
      tactccgtt aactatagg atgtgtata attcgtatg 
      actagtctg tattattgt gtaagtaag gtaattgag 
      tatttatta aattatttt ttaatttta ttgatattg 
      cgttactac ttttgttat ttcacagtc agtattgat 
      atattttta tgttagtga ttgtcaata gtatttatt 
      gaatgtctt gcatcgtaa cgtgcctaa tttaaaatg 
      caaactact acctctgta caagtacta atttataat 
      aatgtaggc aataaggcg acaaattca ttatttcag 
      ggatgcgag gtgtaaata gactcactc tacttggaa 
      cttccctga ttcaaagtc tgactacga aaggaacta 
      tttgtatta atgattata tatagttta tattaataa 
      actatttta gttatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY