Status
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Gene information
General information
TC001438 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: 3902641..3905956
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
    TC001438
    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
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06084

    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


    remarks: later than schedule, hours 48
    Pupal morphology
    remarks: later than schedule, hours 48
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC001438 RA
      MTEQVNNLQ DPKSSGALK KSSRYRSRS LSASSTDSY 
      SSKMPGIMA LRKRATDDK PLKNAKIVG CTHINAQTA 
      VLIETLVAL GANVRWAAC NIYSTQNEV AAALAEAGF 
      SVFAWRGET EEDFWWCID KCVNAENWH PNMILDDGG 
      DATHLMLKK YPAMFKMIK GIVEESVTG VHRLYQLSK 
      AGKLTVPAM NVNDSVTKT KYDNLYSCR ESIIDSLKR 
      STDVMFGGK QVVICGYGE VGKGCSQAL KGLGCVVYV 
      TEIDPICAL QASMDGYRV VKLNEVIRN VDIVITATG 
      NKNVVTREH MDKMKNGCI VCNMGHSNT EIDVNSLRA 
      PDLTWEKVR SQVDHVIWP DGKRIILLA EGRLVNLSC 
      SSLPSFVVS ITSATQALA LIELFNAPA GRYKSDVYL 
      LPKKMDEYV ASLHLPTFD AHLTELTDE QAKYMGLNK 
      AGPFKPNYY RY
    CDS sequence
    • >TC001438 RA
      atgaccgaa caagttaat aatttgcag gaccccaaa 
      tcttctggt gctttaaaa aaatcgagc agatatcgc 
      agccgatca ttatctgct tcgtcaacc gattcctac 
      agctctaag atgccggga atcatggct ttgcgaaaa 
      cgcgcaacc gacgacaaa cctctcaaa aacgccaaa 
      atcgttggc tgcacccac atcaacgcc caaacggcc 
      gtgcttata gaaaccctc gtggccctc ggggccaac 
      gtcagatgg gcagcgtgc aatatttac tcgactcaa 
      aacgaggtg gctgcagct ttggctgag gccgggttt 
      tcggtcttc gcgtggcgc ggcgagacc gaggaggac 
      ttctggtgg tgcatagac aagtgcgtc aatgcggag 
      aactggcac ccgaacatg attttggac gatgggggc 
      gatgccacg cacctcatg ttgaaaaaa tacccggca 
      atgttcaaa atgatcaaa ggcattgtt gaagagagc 
      gtcaccgga gtccaccgc ttgtaccag ctgtccaaa 
      gccgggaaa ttaacggtg ccggcgatg aacgtcaac 
      gattcggtc accaaaact aaatatgac aatctgtac 
      agctgtcga gagtcgatt atcgacagc ttgaagcgc 
      tccactgat gtcatgttc gggggcaaa caagtggtg 
      atttgtggg tacggggag gtcggcaag ggctgctcc 
      caggccctg aaggggctc gggtgcgtc gtctatgtc 
      accgagatc gaccccatt tgcgccctt caagccagc 
      atggacggg tatcgcgtg gtgaagctg aacgaggtg 
      atccggaac gtagatata gtgataacg gcgacaggg 
      aacaaaaac gtggtgacg cgcgagcac atggacaag 
      atgaagaac ggctgcatt gtgtgcaac atgggccac 
      tcgaacact gagattgat gttaatagt ttgcgagcg 
      cctgatttg acttgggaa aaagttcgt tcacaggta 
      gaccatgtt atatggcct gatggtaaa agaattatt 
      cttttagca gaaggaagg ttagttaat ttaagttgt 
      tcaagtttg ccatctttt gttgtttct ataacatca 
      gcaacgcaa gctcttgct ttaattgag ctttttaac 
      gccccagcg gggcgttac aaatctgac gtttatctt 
      ttaccgaaa aaaatggat gagtatgta gcgagttta 
      catttaccg acctttgat gcccacttg actgaattg 
      acggacgaa caggctaag tatatgggc ctaaataaa 
      gctggacct ttcaagcct aactattat aggtattaa
    mRNA sequence
    • >TC001438 RA
      ttaggtctt tttttaagt aatgcatga ttatgattt 
      cgcttaatt tatagtaaa acgctacaa ttgctgttg 
      aataaacac ataaatcac tcaattaac atgatgcat 
      atgatttgt aacgtccta aacgctgtg tttttatgt 
      aaatacatt tttaattta tgctttatt gtaactact 
      tgttattta gccactgta attaatctc gtcacaata 
      aattacttc tgcaccatt cgttattta taattttca 
      aaaactggg gtcctctgc tactttatt atcttgttt 
      aacgtaata tgttatcag ttaattaca gtagaattt 
      tatcaaaga ctaaagcct caaatggta aaacttaac 
      ttatctaga aatcccgca cacatcgta ggccatgac 
      cgaacaagt taataattt gcaggaccc caaatcttc 
      tggtgcttt aaaaaaatc gagcagata tcgcagccg 
      atcattatc tgcttcgtc aaccgattc ctacagctc 
      taagatgcc gggaatcat ggctttgcg aaaacgcgc 
      aaccgacga caaacctct caaaaacgc caaaatcgt 
      tggctgcac ccacatcaa cgcccaaac ggccgtgct 
      tatagaaac cctcgtggc cctcggggc caacgtcag 
      atgggcagc gtgcaatat ttactcgac tcaaaacga 
      ggtggctgc agctttggc tgaggccgg gttttcggt 
      cttcgcgtg gcgcggcga gaccgagga ggacttctg 
      gtggtgcat agacaagtg cgtcaatgc ggagaactg 
      gcacccgaa catgatttt ggacgatgg gggcgatgc 
      cacgcacct catgttgaa aaaataccc ggcaatgtt 
      caaaatgat caaaggcat tgttgaaga gagcgtcac 
      cggagtcca ccgcttgta ccagctgtc caaagccgg 
      gaaattaac ggtgccggc gatgaacgt caacgattc 
      ggtcaccaa aactaaata tgacaatct gtacagctg 
      tcgagagtc gattatcga cagcttgaa gcgctccac 
      tgatgtcat gttcggggg caaacaagt ggtgatttg 
      tgggtacgg ggaggtcgg caagggctg ctcccaggc 
      cctgaaggg gctcgggtg cgtcgtcta tgtcaccga 
      gatcgaccc catttgcgc ccttcaagc cagcatgga 
      cgggtatcg cgtggtgaa gctgaacga ggtgatccg 
      gaacgtaga tatagtgat aacggcgac agggaacaa 
      aaacgtggt gacgcgcga gcacatgga caagatgaa 
      gaacggctg cattgtgtg caacatggg ccactcgaa 
      cactgagat tgatgttaa tagtttgcg agcgcctga 
      tttgacttg ggaaaaagt tcgttcaca ggtagacca 
      tgttatatg gcctgatgg taaaagaat tattctttt 
      agcagaagg aaggttagt taatttaag ttgttcaag 
      tttgccatc ttttgttgt ttctataac atcagcaac 
      gcaagctct tgctttaat tgagctttt taacgcccc 
      agcggggcg ttacaaatc tgacgttta tcttttacc 
      gaaaaaaat ggatgagta tgtagcgag tttacattt 
      accgacctt tgatgccca cttgactga attgacgga 
      cgaacaggc taagtatat gggcctaaa taaagctgg 
      acctttcaa gcctaacta ttataggta ttaaaaata 
      taaagtttt atccataat aaacggggt gaaggaata 
      aaggaacac ggtagcatt aagtcaatg ttagttgtt 
      gccagatag tttagctat aataaatgc aggattgat 
      catttttta atggttgct caaccaatt catgtttca 
      taattttac tgaatcaaa agtattatt acttaacac 
      aaacagtat tttttctgc tagtattta tttacatat 
      ctcaggatt ttatgaaac attaattgt gaaaaaatc 
      gttacgttg tttcaactg ttgattcat gggtaaggc 
      ttctgatct tatttaatt ttaataaaa attggcgca 
      atgttgaaa cgccttccc gtgaataaa aatacgtta 
      cttacatgt ttgaaacaa aactcgtgc atatgtaat 
      cactatcag gtctagtat gtcattgtt ttagttgta 
      ttaagttac gtacttaac tcgttctgg ttttattaa 
      tggatttaa taagtgtat ctgattgat tttgtgatg 
      aagtccaat ggtttgttt gttttgtct catcccaga 
      cgctagtcc agttgaatt gatacgctt tttattaag 
      tagtgccaa caccctcta gcactaaaa taatttaaa 
      tgcaaccag tttgtttag ccgttttga cgttagtga 
      ttttggaaa gtattattt tataatgag gatttttta 
      cggtcctcc acattttaa attattatt gttattgtc 
      aatattacg acaaattgt tacaagtta attgctcta 
      cttgaagaa attactgaa gcaattata ctccacaat 
      aacttgcct ttatcaact tacagcaga gcaatcaac 
      aactcttgt taagaaacc ggaattgcg actctgttt 
      ttgaaggct gttttaagg ctttcaaag acagaattg 
      tcacatttt taaacgtac ttctgtata caaattatc 
      tttagatct atatctttc tttcgatat tttatttta 
      atccacaaa tcacatcat tcacagcgt gacccacgg 
      gtccgccgt cttcttctt tctatgccg taatataga 
      aattaatac gtc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY