Status
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Gene information
General information
TC000837 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: 6527727..6587364
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
    TC000837
    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
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_03088

    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 (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
    • >TC000837 RA
      MDEVNFAAQ CLVEMSHSK DHLNRPLDL SFTSSPTVI 
      VEALPPVTV AYPKEAAPE PQESSSYMV ARILTDLTR 
      IKQEPVPEV PSDSEPALA IDEDDGYNS LMDSSGASS 
      PNASVKVAP LAGGGKVDA VPPPRKAAP RAQPRLNSQ 
      TRKTHKCIY DGCHKIYGK SSHLKAHLR THTGERPFP 
      CSWNNCGKR FARSDELAR HTRTHTGEK NFACPVCNK 
      KFMRSDHLS KHARRHPNF DPSVLRQRR APNRAFSIN 
      SSDGTPSDV LSDSMPSP
    CDS sequence
    • >TC000837 RA
      atggatgag gtcaacttc gcagcccag tgtctggtg 
      gagatgtcg cacagcaag gaccacctc aaccgcccg 
      ctggacctc tccttcacc tcgtcgccg acggtcatc 
      gtcgaggcc ctgccgccg gtcaccgtg gcctacccc 
      aaggaggcg gcgcccgag ccccaggag tcctcctcg 
      tacatggtg gcgcgcatc ctcaccgac ctcacgcgg 
      atcaagcag gagccggtg ccggaagtg ccgtcggac 
      tccgagccc gccctggcc atcgacgaa gacgacgga 
      tacaacagt ttgatggac agttcgggt gcttcgagc 
      cccaatgcc agtgttaaa gtggcgccc cttgccggg 
      ggcggcaaa gtcgacgcg gtgccgccg ccgaggaaa 
      gccgccccc agggcgcag cccagactt aactcgcag 
      acgagaaag actcacaag tgcatctac gatggatgc 
      cacaagatt tacggcaaa agctcgcat ctcaaagct 
      cacctgagg acacacaca ggagaaagg ccgtttccg 
      tgtagttgg aacaattgt gggaagcga ttcgcccgt 
      tcggacgaa ctagccagg cacacccgg acccacacc 
      ggagaaaaa aactttgcg tgtccggtg tgcaacaag 
      aagtttatg aggagtgac catctcagc aaacacgcc 
      cgacggcat cccaacttt gacccgtca gtgctgcga 
      cagcgtagg gcccctaat agggccttc tccatcaat 
      tccagcgat ggaactcct tccgacgtg ctctctgac 
      tccatgccc agcccataa
    mRNA sequence
    • >TC000837 RA
      ggggtccac ttggtgggg agtccaaag cggaacagc 
      aaagcaaag caaagccgc cgcagttcg aaatcggtc 
      gtcgtagtt cgcgttcgt ttcagaagg agtcgaaac 
      cgtcgtcca cgcctccca cagagatgc acatcactt 
      cctcaaccc gtgccacct aacaagcct ctcttcgcg 
      accactctg atcgatccg tgtttgcgc catggatga 
      ggtcaactt cgcagccca gtgtctggt ggagatgtc 
      gcacagcaa ggaccacct caaccgccc gctggacct 
      ctccttcac ctcgtcgcc gacggtcat cgtcgaggc 
      cctgccgcc ggtcaccgt ggcctaccc caaggaggc 
      ggcgcccga gccccagga gtcctcctc gtacatggt 
      ggcgcgcat cctcaccga cctcacgcg gatcaagca 
      ggagccggt gccggaagt gccgtcgga ctccgagcc 
      cgccctggc catcgacga agacgacgg atacaacag 
      tttgatgga cagttcggg tgcttcgag ccccaatgc 
      cagtgttaa agtggcgcc ccttgccgg gggcggcaa 
      agtcgacgc ggtgccgcc gccgaggaa agccgcccc 
      cagggcgca gcccagact taactcgca gacgagaaa 
      gactcacaa gtgcatcta cgatggatg ccacaagat 
      ttacggcaa aagctcgca tctcaaagc tcacctgag 
      gacacacac aggagaaag gccgtttcc gtgtagttg 
      gaacaattg tgggaagcg attcgcccg ttcggacga 
      actagccag gcacacccg gacccacac cggagaaaa 
      aaactttgc gtgtccggt gtgcaacaa gaagtttat 
      gaggagtga ccatctcag caaacacgc ccgacggca 
      tcccaactt tgacccgtc agtgctgcg acagcgtag 
      ggcccctaa tagggcctt ctccatcaa ttccagcga 
      tggaactcc ttccgacgt gctctctga ctccatgcc 
      cagcccata acaggtgta aaaggacgc agtttgccc 
      ttttgtgcg ttttctaac ttcctttca gctcaaaat 
      agtcgatat ctgatgtct agatacgct ctgacgtag 
      gttgtgttt ctgtttttc catggttat ggaattact 
      gttaagtac gttacttga ttcgtgata atttttagt 
      tgtacttac tatcggtgt aaaacaatt tttgtttcg 
      acaacttgt ttgttacta ggagcatac tgtaatgtt 
      tattgtttc gtaacagta gagtagtct atatgctca 
      atacccttc tgaaattac cattaatag ttgttaatt 
      attaatatt attattcat ttcaacgta ttgtaccat 
      tagatgagt aagaaatat caagtattt taatgggaa 
      agtgcgttg aatctatac gtgttagaa actattccc 
      tgcggagaa tattactgt atataatca tagagtaag 
      gtttatttt ttattacga ggaaataaa agtacctag 
      aaatattaa actaaaatt aaattaaca aaatgctaa 
      aaaagacaa acacttttg tatcgttta acagttagt 
      ttgagcttc ccgttgttt aatttgcat ttattgtct 
      ttaattttt aattaagct taagtttat ttaatcggt 
      acctgttcc acttgacgc atttcgatt ttatttcaa 
      gtgtacgtc gctttattt tatttgagc aattaaact 
      gtaatctca tttagttga gtgtttgct tttaccctt 
      ttttagtaa aaatcatat cgacaatcg taacatccg 
      ttattagag gcgtagaat tttgtttga catgtcgtt 
      cttccagca tttagaact atcctcatt agcaattct 
      aaaaaaata gtgatgaat tagtattct aaaaaatga 
      gaacttaaa cttgttatg ataaaagaa attttctag 
      aatgaacca tgtgttgtg tacatagcg agaagcggc 
      gtattttgt aagtaagta aaaaatagt ccacctttt 
      gtatagcat agacgtgta aattgaaat cgacaatat 
      ctgtggtta catcattta gaaattact gttgccttt 
      tatttccat tgtgctttc aaatttcct gaaaattct 
      gcagatgac agcttatct aaatgagca aaatgcgtg 
      aaattatcc attaacatt tcatcaagt gttgaaaac 
      agtttgaca accgactac cacaattaa aaacttcgt 
      ttctttccg accaaagcg agtttgact aaattgcac 
      tctcttgac caatttaga tatgcactt gaggaatta 
      gagtatttt tatattaaa tcacgcttg tcttgtgta 
      cctaatgtt caatcacaa tttttgtat tatacggat 
      gtttgagtg tgtcctgta ggataaagc tgtaaatat 
      tgtacatat acaaaaagc aaaatgata tttatcaat 
      gtttgtgtt atcaaatga ggttaacaa acccacaga 
      tatgtgaat atacataat gccaataa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY