Status
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Gene information
General information
TC002308 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.

NW_015451937.1: 700327..707520
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
    TC002308
    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_03349

    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: 10.0% (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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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
    • >TC002308 RA
      MSSSFFHFI LVILTNLCV TQSHVSVKE VFKKDGDVN 
      VALILHNDC NSTTVLTQQ EQSLVNSAI WTVHQLNYS 
      EIITFGLSI YKACNEKEE YQTVFELFQ KQDENFLLG 
      LISTSLKPQ IRKLCDALD LVIQPTVKC PTPLVEASI 
      ELLKRLNWI ENVTVIAPN EFILNEFAI ISRKKWICV 
      RDFVTYKSF VPSRNYTNE YIVIFANTI VFKTFVENS 
      NTSNIIFVP EDDFVQNDL PENSYVISS KSFNTEQNV 
      YTPTPQLFE VAIPLVNYA QNLNNENCN ETNYKQCLK 
      TSCTVPQTI LDPTEIAKL LKIEPSSIN YFIYKSENL 
      TLNKLFAYN LFTNNLTML EPIDLNQTM LSCLAVKDG 
      CRQQCKNFH SQMKLISSN CDIRIRTES WIFAFLSLS 
      LLGVLFCIA ILVFLLVSV CRKNVLEGN PVLTILLLF 
      TVMVMFCSI VPLSLEGNR WAKRSICMA RALSITLSF 
      AAAFSLMLS RSIVLATAS KEIGFMSHV AGPVQSFLC 
      LFIFGVQAA LSLQVFNHC EDIFRGHSF IYILSYNII 
      LLLLLLCFC PLIFKSQRN YREGKYFTF ATIITSLLW 
      CFWVPAYLL LGDYYKDSV LCFGLVSTA SVLLATIFV 
      PRTYLMTIA AARDKITST LPSLASATS AMDIYRTGA 
      QPVYDCVNV AAINAVRVA AIQHPDLYS CPNLPEDEF 
      DLRCETPVA DDKVTRF
    CDS sequence
    • >TC002308 RA
      atgagttcg agttttttc cactttatc ttagtcatc 
      ttaacgaat ttgtgtgtc acacaatca catgttagt 
      gttaaggaa gtattcaaa aaggacgga gacgtcaat 
      gtagccctt attttacac aacgattgt aacagcaca 
      acagttcta acacagcaa gagcaatcg ttggttaat 
      tcggcaatt tggacagtg catcagttg aattattcc 
      gaaattatc acttttggt ttgtcgatt tacaaggct 
      tgcaacgag aaagaagaa taccaaact gtgtttgaa 
      ctgttccaa aaacaagac gaaaatttt cttttggga 
      ctaattagc acgtcgtta aagccacaa attcgaaaa 
      ctttgtgat gcactagat ttggttatt caaccgact 
      gtgaagtgt cctacaccg ttagttgaa gcttcaatt 
      gagttgtta aaacgtcta aattggatt gaaaatgtg 
      accgtgatt gctcccaat gaattcatt ctaaatgag 
      tttgcaatt atttcacgg aaaaagtgg atctgcgtt 
      agagatttt gtaacatac aagtcgttt gtaccctca 
      cggaactac acaaacgaa tacattgta atttttgca 
      aacactata gttttcaaa acattcgtt gaaaattcc 
      aacacatca aatatcata tttgttcct gaggacgat 
      tttgttcaa aatgatcta cccgaaaac agctacgtc 
      ataagcagc aaatccttc aacaccgaa caaaatgtt 
      tacactccc acacctcaa ctattcgaa gtcgcaatc 
      cctcttgta aactacgct caaaactta aacaatgaa 
      aactgcaat gaaacgaat tacaaacag tgcctcaaa 
      accagttgc actgtcccc caaacaatt ctagaccca 
      actgaaatc gcaaaactg ctcaaaatt gaaccgtcc 
      agtattaat tatttcatc tacaagtct gagaacttg 
      acactcaac aaactgttc gcctataac ctttttacg 
      aacaactta acaatgcta gaacccatc gatttgaac 
      caaacgatg ttaagttgc cttgcggtc aaagacggt 
      tgtcgtcaa caatgcaaa aactttcac agccaaatg 
      aaactaatt tcctcgaac tgcgatatt cggatacga 
      accgaatcg tggattttt gccttcttg tcactatct 
      ctactgggt gttttgttt tgcattgca attttagtt 
      tttctctta gtttcagtt tgtcgtaaa aatgttctt 
      gaaggcaat cccgtcttg acaattcta ctgttgttc 
      actgtaatg gtcatgttt tgctcaatc gttccgttg 
      tctttagaa ggcaatagg tgggccaaa cgttcgatt 
      tgtatggca cgtgctttg tccataacg ctcagtttt 
      gcagcagca ttttcccta atgctcagt cgcagcatt 
      gttttagca acagcttcc aaagagatc gggttcatg 
      tcacacgtt gctggtcca gttcagagt tttttgtgt 
      ctttttatt tttggggtc caagcagct ttgagtttg 
      caagtcttt aatcactgc gaggatatt ttcagaggc 
      cattcgttc atttacatt ttatcatac aatataatt 
      ttgcttctt ctcctcttg tgtttctgt cccttgatt 
      tttaaatct cagaggaac tatcgcgag ggcaaatat 
      ttcacgttc gccacaatt atcacctcc cttttgtgg 
      tgtttctgg gtcccggct tatttactc ctcggtgat 
      tattacaaa gattccgtt ctttgcttc ggtttggtg 
      tccacagcc agtgttctc ctggccaca attttcgtt 
      ccacgtact tatttgatg acaattgcc gcagctcgt 
      gacaagatc acaagcact ttaccgtct cttgcttca 
      gctacaagt gcgatggat atttacagg accggagcg 
      cagccggtt tatgactgt gtcaatgtg gccgcaatt 
      aatgcggta agagtggca gctattcag catccagat 
      ctctattct tgtccgaat ttgccggaa gatgagttt 
      gatttgagg tgcgaaacg ccggttgcg gatgataaa 
      gtgacgagg ttttga
    mRNA sequence
    • >TC002308 RA
      ttatttctg agtcacaca gtggggtgg atgggtttg 
      aacaaggtc ctctattta gtccattaa aaaccgaaa 
      aaacaagaa attgtgcat tgatgcgtt agccggaaa 
      cggaaaagc atttgtgcc attgtattt ccatataac 
      acacacaga cgtgaattt aggtgtcag tgaaatgag 
      ttcgagttt tttccactt tatcttagt catcttaac 
      gaatttgtg tgtcacaca atcacatgt tagtgttaa 
      ggaagtatt caaaaagga cggagacgt caatgtagc 
      ccttatttt acacaacga ttgtaacag cacaacagt 
      tctaacaca gcaagagca atcgttggt taattcggc 
      aatttggac agtgcatca gttgaatta ttccgaaat 
      tatcacttt tggtttgtc gatttacaa ggcttgcaa 
      cgagaaaga agaatacca aactgtgtt tgaactgtt 
      ccaaaaaca agacgaaaa ttttctttt gggactaat 
      tagcacgtc gttaaagcc acaaattcg aaaactttg 
      tgatgcact agatttggt tattcaacc gactgtgaa 
      gtgtcctac accgttagt tgaagcttc aattgagtt 
      gttaaaacg tctaaattg gattgaaaa tgtgaccgt 
      gattgctcc caatgaatt cattctaaa tgagtttgc 
      aattatttc acggaaaaa gtggatctg cgttagaga 
      ttttgtaac atacaagtc gtttgtacc ctcacggaa 
      ctacacaaa cgaatacat tgtaatttt tgcaaacac 
      tatagtttt caaaacatt cgttgaaaa ttccaacac 
      atcaaatat catatttgt tcctgagga cgattttgt 
      tcaaaatga tctacccga aaacagcta cgtcataag 
      cagcaaatc cttcaacac cgaacaaaa tgtttacac 
      tcccacacc tcaactatt cgaagtcgc aatccctct 
      tgtaaacta cgctcaaaa cttaaacaa tgaaaactg 
      caatgaaac gaattacaa acagtgcct caaaaccag 
      ttgcactgt cccccaaac aattctaga cccaactga 
      aatcgcaaa actgctcaa aattgaacc gtccagtat 
      taattattt catctacaa gtctgagaa cttgacact 
      caacaaact gttcgccta taacctttt tacgaacaa 
      cttaacaat gctagaacc catcgattt gaaccaaac 
      gatgttaag ttgccttgc ggtcaaaga cggttgtcg 
      tcaacaatg caaaaactt tcacagcca aatgaaact 
      aatttcctc gaactgcga tattcggat acgaaccga 
      atcgtggat ttttgcctt cttgtcact atctctact 
      gggtgtttt gttttgcat tgcaatttt agtttttct 
      cttagtttc agtttgtcg taaaaatgt tcttgaagg 
      caatcccgt cttgacaat tctactgtt gttcactgt 
      aatggtcat gttttgctc aatcgttcc gttgtcttt 
      agaaggcaa taggtgggc caaacgttc gatttgtat 
      ggcacgtgc tttgtccat aacgctcag ttttgcagc 
      agcattttc cctaatgct cagtcgcag cattgtttt 
      agcaacagc ttccaaaga gatcgggtt catgtcaca 
      cgttgctgg tccagttca gagtttttt gtgtctttt 
      tatttttgg ggtccaagc agctttgag tttgcaagt 
      ctttaatca ctgcgagga tattttcag aggccattc 
      gttcattta cattttatc atacaatat aattttgct 
      tcttctcct cttgtgttt ctgtccctt gatttttaa 
      atctcagag gaactatcg cgagggcaa atatttcac 
      gttcgccac aattatcac ctccctttt gtggtgttt 
      ctgggtccc ggcttattt actcctcgg tgattatta 
      caaagattc cgttctttg cttcggttt ggtgtccac 
      agccagtgt tctcctggc cacaatttt cgttccacg 
      tacttattt gatgacaat tgccgcagc tcgtgacaa 
      gatcacaag cactttacc gtctcttgc ttcagctac 
      aagtgcgat ggatattta caggaccgg agcgcagcc 
      ggtttatga ctgtgtcaa tgtggccgc aattaatgc 
      ggtaagagt ggcagctat tcagcatcc agatctcta 
      ttcttgtcc gaatttgcc ggaagatga gtttgattt 
      gaggtgcga aacgccggt tgcggatga taaagtgac 
      gaggttttg aggtcatga attgtttgc acaataatg 
      gaaaaagga caggatgtg taatttaca ttacgaact 
      gtttccgtc aaagggatc agattaaaa cattatttt 
      atcgtggca tcaactcac cctggagaa agtatacag 
      tgttattca cgtgagacg tcgagcgtt ttaaaaatt 
      aaattaaac taagctgat ttttaataa atctatttt 
      tcgagcgtt atatttaaa attgtgtaa agaatgtat 
      tttgattgt atattactt actttttta aggctcgac 
      atgttacgc gaatagcac tgtagataa ttgtcaagg 
      tcacaaatc cagatttta ggttgagaa gagtaaatt 
      atttagggt gtgtatatt atttaaaac ctttataaa 
      ataagtgtc agtactaat tgtaaaaac aatacaaat 
      tttatgtga aa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY