Status
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Gene information
General information
TC000088 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: 11394060..11408814
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
    TC000088
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00018

    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: 100.0% (includes death as pupa, adult)

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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    low validity due to technical reasons - should be repeated: cuticle phenotype not scorable,
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    pupation precocious - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    remarks: later than schedule, hours 24 adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection


    Pupal morphology
    remarks: later than schedule, hours 24
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000088 RA
      MGLLLRGQG GRTGYPLPP SSHTFPGSL KTMTSFFEH 
      RYNLDHLKF FPQQVLARY QIKALPVGS STASTTSHL 
      GTGNRSVRS LWYGLGSIR LLLSDKLKF VWKKSSRRS 
      EDTMDDDSD DKDSKRKSR NLSEKKRRD QFNLLVNEL 
      SSMVATGSR KMDKSTVLK STIAFLKNH NEIAVRSRV 
      NEIQEDWKP TFLTNEEFT HLILEAVDG FIMVFSASG 
      QIFYASESI TSLLGHLPN QVLNMTIYE MANEEEHSH 
      LYNILLTPS EDQGQVSFS CHLRRGDPD SKQNPSFEL 
      VHFVGYFRS DEDMVQSEN RYSGYSGEA DTRLVFVGT 
      GKIKTPRLI REMPLVDSS KSEFTSRHS LEWKFLFLD 
      HRAPPIIGY LPFELLGTS GYDYYHVDD LDNIIIGHK 
      ALMQKGEGT SCFYRFLTK GQQWIWLQT RYYITYHQW 
      NSKPEFIVC THRVVSYVD VMKQNRKEE TGVTTSGTS 
      PGTPWPKNT KSNIRQGTA SECTSMSAD SPTSRQSVM 
      TQFSVKSES NQPKPPSQM LQPQQPQPL QPQNQIQPS 
      NHQFLEPPQ YVAAIPMQP VISGFSPIQ PLDNVMLTP 
      AQTQMQIDL QRKHAELQA IIGQQQAEL RRVSEQLLM 
      ARLGLLPQN QPVQNYSPQ VSIAYQGSN SGTVSSTTT 
      TIPGIQSSA VGSPSLIVP VSISLPIPQ HQPNMLYTP 
      SDSNGQTK
    CDS sequence
    • >TC000088 RA
      atggggttg cttttgcga ggacaaggc ggtcgaact 
      ggttatccg ttaccgcca agttctcac acattcccc 
      gggtctttg aagacgatg acgagtttc ttcgaacat 
      cgttacaac ctggaccat ctgaaattt tttccgcaa 
      caagtgtta gcacgatac caaatcaaa gctttaccc 
      gtaggatca tcaacggca tcaacaact tcacacttg 
      ggaacaggc aacaggagt gtaagaagt ctgtggtac 
      ggattgggt tctatacgt ttgttgctg agtgacaag 
      ttaaaattt gtatggaag aaaagctcg agacgatcg 
      gaggatacg atggacgat gactccgac gataaggac 
      tcaaaacgg aaatctcga aacttgagt gagaaaaaa 
      agacgagac caatttaat ttactagtg aatgagtta 
      agctcgatg gtagcaacc ggaagtcga aaaatggac 
      aaatctact gtccttaaa tcaacgata gctttttta 
      aaaaatcat aacgaaata gcagtacga tcccgtgtt 
      aacgaaatt caagaagac tggaaaccg acgtttctc 
      acaaacgaa gaattcact catttaatc ctcgaagct 
      gtggatggc tttattatg gtgttttcg gcttcgggt 
      caaattttt tatgcttcg gaaagtatt acctcgctt 
      ttgggacat ttaccgaat caagtcctg aatatgaca 
      atatacgaa atggcaaat gaagaagaa cacagtcac 
      ctctacaat attttactc actccgtcc gaagaccag 
      ggtcaagtt tccttctcg tgtcatttg cgacgtgga 
      gatcctgac tccaaacag aatccctcc tttgaactt 
      gtgcatttt gtaggatat ttcagatct gacgaagat 
      atggttcag agcgaaaat cggtatagt ggctactcg 
      ggggaggca gacactaga ttggtgttt gtgggtact 
      ggtaaaatc aagactcct cgcttgatc cgcgaaatg 
      cccttggtc gactccagc aaaagcgag tttacctcc 
      cgccatagc cttgaatgg aaattcctt tttctggac 
      catcgcgct ccccccatc atcggctac ctcccgttc 
      gagctttta ggcacttcc ggttacgat tactaccac 
      gtcgacgac ttggacaat attataatc ggtcacaaa 
      gccctcatg caaaagggc gagggtact tcttgtttt 
      tatagattt cttacaaaa ggccaacaa tggatttgg 
      ttgcagacc agatattac ataacctat catcagtgg 
      aattccaaa ccggagttt atcgtttgc acgcatcgt 
      gtcgtaagt tatgttgat gttatgaaa cagaatcgg 
      aaggaggag acgggagtt acgacatcg gggacttcc 
      ccggggacg ccatggccc aaaaacacc aagagtaat 
      atacggcag gggacggcg tcggagtgc acctccatg 
      tcggcggat tcccccacg tcgaggcag tcggtgatg 
      acacagttc tcggtgaaa tcggaatcc aaccagccg 
      aagccgccc tctcaaatg ctccaaccg cagcaaccc 
      caacccctc cagccccaa aaccagatc caaccctcc 
      aaccaccag tttttggaa ccacctcaa tacgtagcc 
      gccatccct atgcaaccc gtcatttcg gggttttcc 
      ccgattcag cctctggac aacgtcatg ctgactccg 
      gcacagacc cagatgcag atcgacctc cagcgaaaa 
      cacgccgaa ctccaagca atcatcggc caacaacag 
      gcagagttg aggagggtg tctgagcaa cttttgatg 
      gccaggttg gggcttcta ccccaaaat caacccgtg 
      caaaattac tctcctcag gtgtccata gcgtatcaa 
      ggctcgaat tcgggaaca gtgagtagt acgaccacg 
      acaattccg gggattcag tcaagtgct gtgggctcg 
      ccgtctctt atagtacct gtaagcata tctctacca 
      atacctcag catcaacca aatatgttg tatacgccg 
      tcggattcc aatggacaa acgaaataa
    mRNA sequence
    • >TC000088 RA
      agacttgtt ggcgtcgtg ttcgttatt ttcttcaaa 
      atagttcaa aaataaatc actttttgc gatttaatg 
      aagtgagac cttaatcaa attgaagag ctgaatgca 
      tttggtcgt cagttaatg gattggtga gattttgtt 
      agtaacgaa tttactgtc tcaagagtg cctcatttc 
      tcacttcaa gaccgttaa atatctaag tgctgggtc 
      tttttcctt ttccttttt tccactcct tcctgttct 
      tcgtttgag ttttgtttg cgtcgaatt atggggttg 
      cttttgcga ggacaaggc ggtcgaact ggttatccg 
      ttaccgcca agttctcac acattcccc gggtctttg 
      aagacgatg acgagtttc ttcgaacat cgttacaac 
      ctggaccat ctgaaattt tttccgcaa caagtgtta 
      gcacgatac caaatcaaa gctttaccc gtaggatca 
      tcaacggca tcaacaact tcacacttg ggaacaggc 
      aacaggagt gtaagaagt ctgtggtac ggattgggt 
      tctatacgt ttgttgctg agtgacaag ttaaaattt 
      gtatggaag aaaagctcg agacgatcg gaggatacg 
      atggacgat gactccgac gataaggac tcaaaacgg 
      aaatctcga aacttgagt gagaaaaaa agacgagac 
      caatttaat ttactagtg aatgagtta agctcgatg 
      gtagcaacc ggaagtcga aaaatggac aaatctact 
      gtccttaaa tcaacgata gctttttta aaaaatcat 
      aacgaaata gcagtacga tcccgtgtt aacgaaatt 
      caagaagac tggaaaccg acgtttctc acaaacgaa 
      gaattcact catttaatc ctcgaagct gtggatggc 
      tttattatg gtgttttcg gcttcgggt caaattttt 
      tatgcttcg gaaagtatt acctcgctt ttgggacat 
      ttaccgaat caagtcctg aatatgaca atatacgaa 
      atggcaaat gaagaagaa cacagtcac ctctacaat 
      attttactc actccgtcc gaagaccag ggtcaagtt 
      tccttctcg tgtcatttg cgacgtgga gatcctgac 
      tccaaacag aatccctcc tttgaactt gtgcatttt 
      gtaggatat ttcagatct gacgaagat atggttcag 
      agcgaaaat cggtatagt ggctactcg ggggaggca 
      gacactaga ttggtgttt gtgggtact ggtaaaatc 
      aagactcct cgcttgatc cgcgaaatg cccttggtc 
      gactccagc aaaagcgag tttacctcc cgccatagc 
      cttgaatgg aaattcctt tttctggac catcgcgct 
      ccccccatc atcggctac ctcccgttc gagctttta 
      ggcacttcc ggttacgat tactaccac gtcgacgac 
      ttggacaat attataatc ggtcacaaa gccctcatg 
      caaaagggc gagggtact tcttgtttt tatagattt 
      cttacaaaa ggccaacaa tggatttgg ttgcagacc 
      agatattac ataacctat catcagtgg aattccaaa 
      ccggagttt atcgtttgc acgcatcgt gtcgtaagt 
      tatgttgat gttatgaaa cagaatcgg aaggaggag 
      acgggagtt acgacatcg gggacttcc ccggggacg 
      ccatggccc aaaaacacc aagagtaat atacggcag 
      gggacggcg tcggagtgc acctccatg tcggcggat 
      tcccccacg tcgaggcag tcggtgatg acacagttc 
      tcggtgaaa tcggaatcc aaccagccg aagccgccc 
      tctcaaatg ctccaaccg cagcaaccc caacccctc 
      cagccccaa aaccagatc caaccctcc aaccaccag 
      tttttggaa ccacctcaa tacgtagcc gccatccct 
      atgcaaccc gtcatttcg gggttttcc ccgattcag 
      cctctggac aacgtcatg ctgactccg gcacagacc 
      cagatgcag atcgacctc cagcgaaaa cacgccgaa 
      ctccaagca atcatcggc caacaacag gcagagttg 
      aggagggtg tctgagcaa cttttgatg gccaggttg 
      gggcttcta ccccaaaat caacccgtg caaaattac 
      tctcctcag gtgtccata gcgtatcaa ggctcgaat 
      tcgggaaca gtgagtagt acgaccacg acaattccg 
      gggattcag tcaagtgct gtgggctcg ccgtctctt 
      atagtacct gtaagcata tctctacca atacctcag 
      catcaacca aatatgttg tatacgccg tcggattcc 
      aatggacaa acgaaataa gttaattag tgcgaagaa 
      accaaagac aaaaaatga acaattcgc tcaatttgt 
      taccgtaac cctacctct gtgttatcg tgtcttaaa 
      aattagtca ttgattttt agtggtgat aattaatca 
      acgcacaat cgaagtgta ttaaatgaa gtgattagg 
      gtggataca atatttgaa tcgtacaaa gttgtattt 
      gatgtcaaa acctcgact gttgcagca atttggaaa 
      gatattgtt tgtttgtgg tcgatgtat atttgtctg 
      aatcacgtg actgtcttt tcttatttt tttctccaa 
      tgtagatac aactatgtg gaatgaaat tttttattt 
      tttaacaaa tttatgtaa ataagtata aataactcg 
      tttagtata atctttcgt aggaaattg cctgaatgt 
      gataagttg atacgtcct cgtattgta taatgttgt 
      aatatacac atatagtat tt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY