Status
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Gene information
General information
TC000894 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_007417.3: 7992338..8033828
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
    TC000894
    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_06451

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    abdomen segment ventral ectopicallystructure - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Each abdominal segment shows a pygopodium-like structure on the ventral side.
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 10 (16 dpi)
    Days post injection



    Pupal morphology
    elytra elongated - Number of animals showing the phenotype: 10

    abdomen gin-traps shortened - Number of animals showing the phenotype: 10

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000894 RA
      MSSKFIIDS MLPKYHQQF HHQQLFQSA TTEAPAAYS 
      SSSPSGSSP QHSSSSAST SPAARMYPY VSAAHHHHQ 
      AAAAAFGAA ASGSMVPSF SSTASSALA AAVDAATDK 
      SCRYTAGLA ANVTPADSM VNYTLGQHH HNGAAVSAA 
      SSVSAASAS MAVAAQFYH QAASAVVDP LNSCSQPAA 
      PGGQPIPDI PRYPWMSIT DWMSPFDRV VCGPNGCPR 
      RRGRQTYTR FQTLELEKE FHFNHYLTR RRRIEIAHA 
      LCLTERQIK IWFQNRRMK LKKELRAVK EINEQARRE 
      REEQERHKQ QQQEKQQKI EQQTHSSIH QHHHDPMKM 
      SLDKSGGSD LLKAVSKVP T
    CDS sequence
    • >TC000894 RA
      atgagttcc aagttcatc atcgatagc atgctcccg 
      aagtaccac cagcagttc caccaccag cagctgttc 
      cagagcgcc accaccgaa gcccccgcc gcctacagc 
      tcgagctcg ccgagcggc tcctcgccc cagcactcc 
      tccagcagc gcgtccacc tcccccgcc gccaggatg 
      tacccctac gtgtcggcc gcacaccac caccaccag 
      gcggcggcc gcggccttc ggcgccgcc gcctccggc 
      tccatggtg ccgtcgttc tcgtccacg gccagcagc 
      gcgctcgcc gccgccgtc gacgccgcc accgacaag 
      tcctgcagg tacacggcg ggactcgcg gcgaacgtg 
      accccggcc gactcgatg gtcaactac acgctcgga 
      cagcaccac cacaacggc gccgccgtc tccgccgcc 
      agctccgtc agcgccgcc tccgcctcc atggccgtc 
      gcggcgcag ttctaccac caggccgcc agcgctgtt 
      gtcgacccg ctcaactct tgctcgcag cctgcagca 
      cctggggga cagcccatt ccagacatc ccgaggtac 
      ccttggatg tccatcaca gactggatg agcccattt 
      gaccgagtg gtctgtggt ccgaacggg tgccctcga 
      cgacgcggt cggcagacc tacacaagg tttcaaact 
      ttagaactc gagaaagag tttcacttt aatcactat 
      ttgacccgg cggagacgc attgaaatc gcacacgcc 
      ttgtgtctg acagagaga caaatcaaa atctggttt 
      cagaacagg aggatgaag ctgaagaag gagctgcgg 
      gcggtgaag gagatcaac gagcaggcc aggcgggag 
      cgggaggag caggagagg cacaagcag cagcagcag 
      gagaagcag cagaagatc gagcagcag acgcactcc 
      tcgatccac cagcaccac cacgacccc atgaagatg 
      agcttggac aaaagtggg ggctccgat ctactcaaa 
      gccgtctcg aaagtacct acataa
    mRNA sequence
    • >TC000894 RA
      acccgaatc aatttccca ttccaggca tgcacctca 
      ctccaccaa acccgaaaa aagtgcatt cgttcgtcc 
      atcatttgt tgtgttacg acctacctc aatccagcg 
      tcgcgacgc gtcgcaatt aactccaac catcacgca 
      tcatgcacc catgaagca cataattca aacgattta 
      tggttgcgt ggtcgatcc ttgcaaata gtcagaaac 
      actggttcg gttttttgt tttgatttg gtcgggccc 
      ggcttccat gttgggcag aaattcggc ggccatgtt 
      gggatatcg accaactag aactggctg gctacgccc 
      tgatgtcat tgtctcttt gtgcttagg gctattgtt 
      aaacggtgt gtccccgat gactgtctg cagaagtgt 
      gggtgaggt cgtagtgct gagagggta agtgtgttg 
      taactgtgg gtgttttgc ggtgtcgct ccttgattt 
      tgaaggatt aggtgtcgc atttgctat aatacgtca 
      tttaggccg agtaaacat ggaatgcgt gacgataat 
      acaaggcaa tttagataa agtagtagc gtaaggtca 
      gcatcccac gaggtgttt agtatgttt tggccctag 
      atggcagcg ctcgttccg gtttgtgtg tgtgtgtgt 
      agcgtttat ttgtgagag ttagttctg tgagcttgg 
      cagcgagcg atcctctgg tgggccgga atgaagaag 
      tagtgagcg tttgcgtgc ttggaatcg cgttggtcg 
      cccattggc cggatccgc acctgctcg gattggcgc 
      ggtcgtgga ggggcgcca ttacgctct agtaccgtg 
      gataaggca tagagggct atagactga acatacatg 
      ggtcataaa ggattggaa gaagtagag gagaaggtg 
      caagaagta gtcagaggg ttaaacgag gccgttgaa 
      gatttaagt gcgggtcgt aaaggtgcg gtgctaatc 
      atcggacta tgacaagtg cgaagtgca gtgctcgga 
      accggcagc aatgagttc caagttcat catcgatag 
      catgctccc gaagtacca ccagcagtt ccaccacca 
      gcagctgtt ccagagcgc caccaccga agcccccgc 
      cgcctacag ctcgagctc gccgagcgg ctcctcgcc 
      ccagcactc ctccagcag cgcgtccac ctcccccgc 
      cgccaggat gtaccccta cgtgtcggc cgcacacca 
      ccaccacca ggcggcggc cgcggcctt cggcgccgc 
      cgcctccgg ctccatggt gccgtcgtt ctcgtccac 
      ggccagcag cgcgctcgc cgccgccgt cgacgccgc 
      caccgacaa gtcctgcag gtacacggc gggactcgc 
      ggcgaacgt gaccccggc cgactcgat ggtcaacta 
      cacgctcgg acagcacca ccacaacgg cgccgccgt 
      ctccgccgc cagctccgt cagcgccgc ctccgcctc 
      catggccgt cgcggcgca gttctacca ccaggccgc 
      cagcgctgt tgtcgaccc gctcaactc ttgctcgca 
      gcctgcagc acctggggg acagcccat tccagacat 
      cccgaggta cccttggat gtccatcac agactggat 
      gagcccatt tgaccgagt ggtctgtgg tccgaacgg 
      gtgccctcg acgacgcgg tcggcagac ctacacaag 
      gtttcaaac tttagaact cgagaaaga gtttcactt 
      taatcacta tttgacccg gcggagacg cattgaaat 
      cgcacacgc cttgtgtct gacagagag acaaatcaa 
      aatctggtt tcagaacag gaggatgaa gctgaagaa 
      ggagctgcg ggcggtgaa ggagatcaa cgagcaggc 
      caggcggga gcgggagga gcaggagag gcacaagca 
      gcagcagca ggagaagca gcagaagat cgagcagca 
      gacgcactc ctcgatcca ccagcacca ccacgaccc 
      catgaagat gagcttgga caaaagtgg gggctccga 
      tctactcaa agccgtctc gaaagtacc tacataatt 
      gtgcagtga ctccgacaa gtgtcagtg actggactc 
      tagtgacga gtgacttga ccttttgtt ttatacaaa 
      gaagcttcg ttatttgtg ttttgattc gttgtacat 
      aaagtagtg tgttcacgt taatatttt atacttaaa 
      agtaatttt tatagtatt tttttagtt agacgatca 
      ggttctgat ctaaactca ttgacgtta ttttacgta 
      ccactgttg tgattaatt atttaagtt taacaagca 
      tttgaaatg cgtcatgtt tttatactc tttgttttt 
      tttcaatag tgaaattcg cagatttgt tgcttgtta 
      cgttttact ttgttttaa ctttgtgcc aagcttaga 
      aaagcaacc agccatatt atagtgaac aggactcac 
      tcatatatt tttacaagt ttccagcag tttttccga 
      tgactaaag aaaactgaa aaacggccg agtatttta 
      ctcttagta ctcttatac gtaatttgg tgtcagggt 
      agtaaaaaa cctaaaaaa atacagttt agtagatta 
      aaacaaaaa ttaacttac atctaagcg taattttcc 
      ttctaattc atagctatt gtcgtatcc caactcgtc 
      ttctcgtgt aaaatattt tcttagatt attgatgtt 
      gttatgtgt aaactatgt aatagtttg ttggcgggt 
      gagccttct ccacattta gatacgtaa aattgtaca 
      atattttca agtcacaaa ttgtaaagc aaaatgtaa 
      attttttgt ttaatatgt aaagaaaat gaatacgta 
      tacgccatt tttgttatt tttttgaga aaaattcta 
      ttttctttt cggtattac tgagttgtt tgaccgatc 
      cttcactta tcaattaat attgtacag aacagttac 
      tgtaaatac atatagcta cggccatgt agacgtatt 
      gttaatgaa ttccctata ttcaagcaa acttggact 
      gattaacgc ttttaagga aacaaaagc ttactagag 
      taggttcat atttagcaa ccagtatgt agtacaagt 
      accaatact tgcctagga tttcgttta atttatttt 
      agtcgatgt gtaccttct ggaattaat ttcgctttc 
      attcgaacc ccacaccgg tgtgactgt tgttccgtt 
      cgagtctga aaatgtttg cagctctct tcagcctgt 
      gatagaaaa tccgttaga ttttgtgaa gctgtattg 
      acttacact ttttcgtta taactgggt ttgcattga 
      tgaaaccga aatttgtta aaagtgcaa taatttgtt 
      ggttgttag ttctctaga aaaacacgt gcaatcctt 
      atcattttc gaacgaaat gattcagag catatcttt 
      ggtacaaca tttgttaag tttgtcgtc agtgtaaac 
      ctgttattc cctttccgt tttcgacca ttttataga 
      aaaccatat catttgtgc gattttttt gttgtggaa 
      cgtttgtat gactgtaat taacgtaat ttataaaat 
      gtttataat atcgtaagt agtgtaagt gtacatgtt 
      tcgtactgt ttgaggtag acttccata ccagctctc 
      caagccgaa ttactcttc aatgtatta taaaaaccg 
      tcacttcta tagtgctac catttgctt tgatgccat 
      gtttcatat ataactgta taacctata agatgtatt 
      gtacagatt gtctgaact gaataaata tttctttgg 
      aaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY