Status
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Gene information
General information
TC004603 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: 6728237..6732125
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
    TC004603
    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
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    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
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    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00732

    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: 33.33% (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: 2 (9 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC004603 RA
      MASQNNLDL DLDLNSDDE LNHLKTSKR QITHDEFLR 
      NREIMANFP NRYYQTQED IILKRRIGS GVAFVSLVA 
      ENLLSHPFQ VLRRQCQVH HSSQRYHLL PFTLIPTVY 
      RLHQHQGLT TLWKGLGSV LLVRGISLG VEDLISKVT 
      PWPKEIRWH SSLKQFFQH TLLKCVSLA IVTPFYSAS 
      FVETVQSEI ASEKPGILD VFKEGFMRL LNWNGGVKG 
      RMLPIWVLI VPTITLGLS KYLFNMLVK GASVRLLHS 
      RFKNKHEAN GALPKDISH SVVLQDLDI TASLVANIA 
      SDVAFYPCE TIIHRLYLQ GTRTIVDNL DSGRSVLPI 
      LTNFAGAMD CYETCVASE GTLGLYKGF GALIMQYAV 
      HIALIQFSR FLLTELGSL LHKPKKQPP LPTDISPAA 
      LSNLSATHR SYLLP
    CDS sequence
    • >TC004603 RA
      atggcaagt caaaataat ctcgattta gacctcgat 
      ttaaactcc gacgatgaa ttaaatcac ctgaaaaca 
      tccaaacga caaatcaca catgacgag tttttacga 
      aatcgggaa attatggcg aatttcccg aaccgttac 
      taccaaaca caagaagac ataattctc aagcgccgg 
      atcggctca ggggtcgct tttgttagt ttagtggcg 
      gaaaattta ctgagccac ccgttccaa gtcctgcgt 
      cgccagtgt caagtccac cacagttcg caacgatac 
      catttgtta ccatttacg ttaataccg acggtttat 
      cggctgcac cagcaccag ggcttgacc actctttgg 
      aagggcctg gggtccgtt ttgctcgtc cgggggatt 
      tccttaggg gtggaggac ttaatttcg aaagtaaca 
      ccctggcct aaggaaatc cggtggcat agtagcttg 
      aaacagttt ttccaacac acgttactc aaatgcgtc 
      agtttagcg attgtgacg ccgttctac tccgcatct 
      ttcgttgaa acggtccag agcgaaatc gcaagtgag 
      aaaccggga attttggac gtttttaaa gaaggtttc 
      atgcgatta ttgaactgg aatgggggc gtcaagggc 
      cgcatgttg ccgatttgg gtgctaatt gtccccact 
      ataacgcta ggactgtcg aagtattta tttaacatg 
      ttggtaaaa ggggcgtca gtgcgtctt ttacactcg 
      cggtttaaa aacaaacat gaggctaac ggggctttg 
      cctaaagac atctcccat tctgttgtt ttgcaagac 
      cttgatatc acagcttca ctggttgcc aacattgca 
      agcgatgtt gctttctat ccgtgtgaa acaataatc 
      catcgtttg tatctccag gggacacga actatagtg 
      gataacttg gacagtggc cgttcagtg ttgccaatc 
      ttaacaaat ttcgctggt gcaatggac tgctacgaa 
      acgtgtgtg gcgagtgaa ggcacgttg gggctctac 
      aagggtttt ggggctctt attatgcaa tatgcggtc 
      catattgct cttatacaa ttttcaaga tttttatta 
      acagaactt ggaagtttg ctccacaaa ccaaaaaaa 
      cagcctccg ttaccaact gatatctcc ccggctgcg 
      ttatcaaac ttatcagct acacacagg tcctatcta 
      ctcccgtaa
    mRNA sequence
    • >TC004603 RA
      cacataaaa taacaaaac gaacgtcaa gtgaaaaat 
      aaagccgaa ttggggcta aaagtacga agtgttgtc 
      gcgtgattt tcgcaaaaa tggcccaaa attccgaaa 
      tcgttccat tttaatgac ctttcctta gaaccattc 
      gaccagtgg gcaatgctg tagtaaagt gaaaaagtg 
      aggttaggg ccatggcaa gtcaaaata atctcgatt 
      tagacctcg atttaaact ccgacgatg aattaaatc 
      acctgaaaa catccaaac gacaaatca cacatgacg 
      agtttttac gaaatcggg aaattatgg cgaatttcc 
      cgaaccgtt actaccaaa cacaagaag acataattc 
      tcaagcgcc ggatcggct caggggtcg cttttgtta 
      gtttagtgg cggaaaatt tactgagcc acccgttcc 
      aagtcctgc gtcgccagt gtcaagtcc accacagtt 
      cgcaacgat accatttgt taccattta cgttaatac 
      cgacggttt atcggctgc accagcacc agggcttga 
      ccactcttt ggaagggcc tggggtccg ttttgctcg 
      tccggggga tttccttag gggtggagg acttaattt 
      cgaaagtaa caccctggc ctaaggaaa tccggtggc 
      atagtagct tgaaacagt ttttccaac acacgttac 
      tcaaatgcg tcagtttag cgattgtga cgccgttct 
      actccgcat ctttcgttg aaacggtcc agagcgaaa 
      tcgcaagtg agaaaccgg gaattttgg acgttttta 
      aagaaggtt tcatgcgat tattgaact ggaatgggg 
      gcgtcaagg gccgcatgt tgccgattt gggtgctaa 
      ttgtcccca ctataacgc taggactgt cgaagtatt 
      tatttaaca tgttggtaa aaggggcgt cagtgcgtc 
      ttttacact cgcggttta aaaacaaac atgaggcta 
      acggggctt tgcctaaag acatctccc attctgttg 
      ttttgcaag accttgata tcacagctt cactggttg 
      ccaacattg caagcgatg ttgctttct atccgtgtg 
      aaacaataa tccatcgtt tgtatctcc aggggacac 
      gaactatag tggataact tggacagtg gccgttcag 
      tgttgccaa tcttaacaa atttcgctg gtgcaatgg 
      actgctacg aaacgtgtg tggcgagtg aaggcacgt 
      tggggctct acaagggtt ttggggctc ttattatgc 
      aatatgcgg tccatattg ctcttatac aattttcaa 
      gatttttat taacagaac ttggaagtt tgctccaca 
      aaccaaaaa aacagcctc cgttaccaa ctgatatct 
      ccccggctg cgttatcaa acttatcag ctacacaca 
      ggtcctatc tactcccgt aactagtca tgaatgtag 
      gactaattg acaatgtgt tcttggaga tgacaaata 
      agttcgatg ttgattggc gctatttta ccatcattg 
      gatttatac ataaaagtg ttgtgttat cttagggac 
      acaaagtgt attttttgt taatcaaat tttaagtca 
      cgttgaact gttactttt gcgtttaca ataaactaa 
      aatcaacaa a
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY