Status
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Gene information
General information
TC004376 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_007425.3: 6943074..6945951
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
    TC004376
    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_08043

    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)

    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 (11 dpi)
    Days post injection


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    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
    • >TC004376 RA
      MSTVQAIKQ LEERNVASE IVQMVWSDR MDLVALANI 
      KGEVALHRL TWTKAWSLS APKDGLKVT SIAWRPDGK 
      IIAIAYSSG QILLVKVEN KSVLHTIDI KGEVSCLNW 
      LQDRTVKGK LPSVDEDSK QNQYMKHID LSGNFLPEP 
      VLQQFDSPN NDDGQKTNI LQEQTDFNL LLIGTSEGT 
      VHVRVFGCF PCASLDLKQ TLNCFCSIQ NMHLNEDLN 
      RMFFTVRDN ENNVKLICF DSEIFKTHT NELFALALK 
      HIKLTSLVT YLSNTITTI TESWESILL EMDNKLSKY 
      ASKVPEGGV TADFLDLLT FGICSDEMK TFLIHDLTK 
      KGLEKFGQT IEMSYSNIQ KLMLKYVMK FGQNVTYHL 
      AEMRGMARL EHRYKVLGL DAAAITGAI SSNGAFLIK 
      GSEMQQIIN HSIINYKAF FRWLYTAIM HVLDEPIPN 
      EIPKMTQQD LAYITEFLQ NFDHISRNN KQKGFIMER 
      LGQYLSDGN LTIQPDMSG NEWTDFLAQ NQCMEKNSS 
      ILRHFKEMS LIQQYKHLK QSVDAIFAT PREQISRQF 
      SHLNDFNCF QFCGDSLRT SQVNLNKES ILFCYLQPP 
      ETVLGLQVY LDDGNCFIK CARLYFPRD NSEDNYHVI 
      DIKLYSSAV LSVLLQENT VSKATVLSQ IPIGGVLDK 
      FVDGGETDR VFSGGVNVV SLNGSCLVP KLFKCVEGM 
      VGAEFAVSG SRRVGIVLA ENRRKVRLY EMEGEEEEE 
      EDAEMNNSG VQE
    CDS sequence
    • >TC004376 RA
      atgagcaca gttcaggcg attaaacag ctcgaagag 
      cgcaatgtg gccagtgag attgttcaa atggtgtgg 
      agcgaccgt atggacctt gtcgctctt gccaatatc 
      aaaggagag gtggctctt catcgactc acttggacc 
      aaagcgtgg agtctcagt gcccccaag gatgggtta 
      aaggtcaca agtattgcc tggaggcct gacggcaaa 
      atcatagca attgcgtac agttctggc caaatactg 
      cttgtgaag gtcgagaat aagtcggtg ttgcatact 
      attgacatc aagggcgaa gtttcatgt ctcaattgg 
      ttgcaagac cggactgtt aaagggaaa ctgccttca 
      gttgacgaa gacagtaaa cagaatcag tacatgaaa 
      cacattgac ttatcgggt aattttttg cccgaaccg 
      gtgctacaa cagttcgat tcccccaac aacgacgat 
      ggtcagaaa accaacatt ttgcaagag caaaccgac 
      tttaatttg ctcctgatt gggacaagt gagggcacc 
      gtgcacgtg cgagttttc ggttgtttc ccgtgcgct 
      tcccttgac ttgaagcaa actctcaac tgtttttgc 
      tccatccag aacatgcat ttgaacgag gacctgaac 
      cgcatgttt ttcacagtg cgagacaac gaaaacaac 
      gttaaattg atttgtttc gattcggaa attttcaaa 
      acgcacaca aacgaactg ttcgctttg gccctcaaa 
      cacataaaa ttgacctca ctggtgacc tatctctcc 
      aacactatt accaccatc accgagtcc tgggagagc 
      attttgctg gagatggac aacaagttg tcgaaatat 
      gcgagcaag gtgccagaa gggggcgtc acggctgat 
      tttttggat ttgctgacg tttggaatt tgctcggat 
      gagatgaag acctttctc atacacgat ttaacgaag 
      aaagggttg gagaagttc gggcagacg attgagatg 
      agttattcc aacattcag aagttgatg ctgaagtat 
      gtgatgaag tttgggcag aatgttacc tatcacttg 
      gccgaaatg agggggatg gcaagactg gaacaccgc 
      tataaggtt ttgggtttg gacgcggcc gccattacc 
      ggcgccatt tcctcgaac ggcgccttc ttgatcaaa 
      ggcagcgaa atgcagcaa atcatcaat cactccatc 
      atcaattac aaggccttc ttccgctgg ctctacacg 
      gcaataatg cacgttctg gatgagcca ataccgaac 
      gaaatcccc aaaatgact cagcaagac ctggcttac 
      atcaccgaa tttttgcaa aactttgac cacatcagt 
      cggaataac aaacaaaag gggttcatt atggagcgg 
      ttggggcaa tatttaagc gatggcaat ttgacgatc 
      caaccagac atgtccggg aacgaatgg actgatttt 
      ttggcccag aaccaatgt atggaaaaa aatagttcc 
      attttgagg cacttcaaa gagatgtcg ctgatacaa 
      cagtacaaa catttgaag caaagcgtc gatgcgatt 
      ttcgcgaca cctagagag caaattagt aggcagttc 
      agtcatttg aatgacttc aattgtttc caattttgc 
      ggcgattcg ttacggacg tcccaagtc aacttaaac 
      aaagaatcg attcttttt tgttacttg cagccgcct 
      gagaccgtt ctaggcctg caggtgtat ctagacgat 
      ggcaattgt ttcataaag tgtgcgcgt ctgtacttc 
      ccccgtgac aattccgag gataattat cacgtgatc 
      gatattaaa ctatattcg agtgcagtg ttgtcggtt 
      ttattgcaa gaaaacacc gtttctaaa gctacagtt 
      ttaagtcag ataccgata ggtggcgtt ttggacaag 
      tttgtggat gggggggag acagatcgt gtttttagt 
      ggtggggtt aacgtggtt agtttgaac ggttcgtgt 
      ttggttccg aagctgttt aagtgtgtg gaggggatg 
      gtgggggcg gagtttgca gtgtcgggg agtcgacgt 
      gtcggtatc gtattggcg gaaaatcgg aggaaggtg 
      cgcttgtat gaaatggag ggggaggaa gaggaggag 
      gaagatgcg gagatgaac aatagtggg gtacaagaa 
      tga
    mRNA sequence
    • >TC004376 RA
      accttacaa tttgaaaat tgttttttg ttactaatt 
      gttggaaaa tgagcacag ttcaggcga ttaaacagc 
      tcgaagagc gcaatgtgg ccagtgaga ttgttcaaa 
      tggtgtgga gcgaccgta tggaccttg tcgctcttg 
      ccaatatca aaggagagg tggctcttc atcgactca 
      cttggacca aagcgtgga gtctcagtg cccccaagg 
      atgggttaa aggtcacaa gtattgcct ggaggcctg 
      acggcaaaa tcatagcaa ttgcgtaca gttctggcc 
      aaatactgc ttgtgaagg tcgagaata agtcggtgt 
      tgcatacta ttgacatca agggcgaag tttcatgtc 
      tcaattggt tgcaagacc ggactgtta aagggaaac 
      tgccttcag ttgacgaag acagtaaac agaatcagt 
      acatgaaac acattgact tatcgggta attttttgc 
      ccgaaccgg tgctacaac agttcgatt cccccaaca 
      acgacgatg gtcagaaaa ccaacattt tgcaagagc 
      aaaccgact ttaatttgc tcctgattg ggacaagtg 
      agggcaccg tgcacgtgc gagttttcg gttgtttcc 
      cgtgcgctt cccttgact tgaagcaaa ctctcaact 
      gtttttgct ccatccaga acatgcatt tgaacgagg 
      acctgaacc gcatgtttt tcacagtgc gagacaacg 
      aaaacaacg ttaaattga tttgtttcg attcggaaa 
      ttttcaaaa cgcacacaa acgaactgt tcgctttgg 
      ccctcaaac acataaaat tgacctcac tggtgacct 
      atctctcca acactatta ccaccatca ccgagtcct 
      gggagagca ttttgctgg agatggaca acaagttgt 
      cgaaatatg cgagcaagg tgccagaag ggggcgtca 
      cggctgatt ttttggatt tgctgacgt ttggaattt 
      gctcggatg agatgaaga cctttctca tacacgatt 
      taacgaaga aagggttgg agaagttcg ggcagacga 
      ttgagatga gttattcca acattcaga agttgatgc 
      tgaagtatg tgatgaagt ttgggcaga atgttacct 
      atcacttgg ccgaaatga gggggatgg caagactgg 
      aacaccgct ataaggttt tgggtttgg acgcggccg 
      ccattaccg gcgccattt cctcgaacg gcgccttct 
      tgatcaaag gcagcgaaa tgcagcaaa tcatcaatc 
      actccatca tcaattaca aggccttct tccgctggc 
      tctacacgg caataatgc acgttctgg atgagccaa 
      taccgaacg aaatcccca aaatgactc agcaagacc 
      tggcttaca tcaccgaat ttttgcaaa actttgacc 
      acatcagtc ggaataaca aacaaaagg ggttcatta 
      tggagcggt tggggcaat atttaagcg atggcaatt 
      tgacgatcc aaccagaca tgtccggga acgaatgga 
      ctgattttt tggcccaga accaatgta tggaaaaaa 
      atagttcca ttttgaggc acttcaaag agatgtcgc 
      tgatacaac agtacaaac atttgaagc aaagcgtcg 
      atgcgattt tcgcgacac ctagagagc aaattagta 
      ggcagttca gtcatttga atgacttca attgtttcc 
      aattttgcg gcgattcgt tacggacgt cccaagtca 
      acttaaaca aagaatcga ttctttttt gttacttgc 
      agccgcctg agaccgttc taggcctgc aggtgtatc 
      tagacgatg gcaattgtt tcataaagt gtgcgcgtc 
      tgtacttcc cccgtgaca attccgagg ataattatc 
      acgtgatcg atattaaac tatattcga gtgcagtgt 
      tgtcggttt tattgcaag aaaacaccg tttctaaag 
      ctacagttt taagtcaga taccgatag gtggcgttt 
      tggacaagt ttgtggatg ggggggaga cagatcgtg 
      tttttagtg gtggggtta acgtggtta gtttgaacg 
      gttcgtgtt tggttccga agctgttta agtgtgtgg 
      aggggatgg tgggggcgg agtttgcag tgtcgggga 
      gtcgacgtg tcggtatcg tattggcgg aaaatcgga 
      ggaaggtgc gcttgtatg aaatggagg gggaggaag 
      aggaggagg aagatgcgg agatgaaca atagtgggg 
      tacaagaat gactttatt tacattcta aggactaaa 
      gtt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY