Status
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Gene information
General information
TC011472 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_007425.3: 6788761..6793925
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
    TC011472
    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
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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_01853

    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: 2 (3 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011472 RA
      MLSCHCLNV IIETEGDLQ KVTPETLEL SPEEVQDSF 
      FKQDIQQVG KLININKSH SGLIETRNV GAWAIHCCI 
      NCDVHSHAV HREKGASCV LVNSKLFTE QTVNKLQNS 
      EAFSKLFKI LVNSDEIVD DDFTGNSYL PNDVENVIR 
      GLKQIAAEA LKNEAIAVE DRIRQFSDE QYRKLNELR 
      ERAFREQQI LTKIILNKS SQQTKPAST NTGMSNPQG 
      MPSRLNEPL AAGSVKPTS NTTPSAPRH TPKRQKSCP 
      LNQVNSFDT EGLFEFDGT DDNHSGTAS EVDESDLDE 
      AMIREDGVK IPKRGTNTG IAKSLPMTI PAFLAQTRN 
      RSFEDVDEA PPVEANTDI AASIKALAK SVHGDPVFG 
      DLPKPRYTY I
    CDS sequence
    • >TC011472 RA
      atgttgtcg tgccattgt ctcaacgtg atcatcgaa 
      actgaaggc gacttgcag aaagtcacc cccgaaacg 
      ttggagttg tctccggag gaggtgcaa gacagcttc 
      ttcaaacag gacattcag caagtcggc aaattaatt 
      aatattaat aaatcccac tcagggttg attgaaact 
      agaaatgta ggcgcttgg gctattcat tgttgtatt 
      aattgtgat gttcattcg catgcagta catcgagaa 
      aagggtgct tcctgtgtt ctcgtcaac tcgaagctt 
      ttcaccgag cagactgtg aacaagtta cagaacagc 
      gaagccttc tccaagctg ttcaagatc ctcgtcaat 
      tctgacgaa attgttgac gacgatttc acgggaaat 
      tcatatttg ccaaacgac gttgaaaat gtcattcgg 
      gggctgaaa caaatcgct gctgaagcc ctgaagaat 
      gaggcaatc gctgttgaa gacaggata agacaattt 
      agtgacgaa cagtacagg aaacttaac gaactgaga 
      gagagggcc tttagagaa caacaaatt ttaacaaaa 
      attatttta aataaatcg tcacaacaa acgaaacct 
      gcaagtaca aacacgggc atgtccaat ccgcagggg 
      atgccatcg agactgaac gaacctcta gcggccgga 
      agcgtcaaa cccacatcg aacaccacc ccgagcgcc 
      ccgcggcac acgcccaag cgccagaag agctgcccc 
      ctgaaccag gtgaactcg ttcgacacc gaaggcctg 
      ttcgagttc gacggcacc gacgacaac cactcgggc 
      accgcgtcc gaagtcgac gaaagcgac ctggacgag 
      gcgatgatc cgtgaagac ggcgttaaa atcccgaaa 
      cgtggcaca aacaccggc attgccaag tccctcccg 
      atgacgatt ccggccttt ctggcacag acccgaaac 
      cggagtttc gaagacgtg gacgaagcg ccacctgtc 
      gaagccaat acggacata gcggccagt attaaggcg 
      ctggcgaaa agtgtgcac ggtgatccg gttttcggg 
      gatttaccc aaaccgaga tacacctac atttaa
    mRNA sequence
    • >TC011472 RA
      ccctctctc atcgaaatt cgcatgtcg ttgctgctg 
      gtctctatg cacatccat cgtcctttg tgtctcgtc 
      ttcccagtc cttgttccc tcaactttg cccaatttc 
      ccgtgaatt tccagcacc ggtgttgcc ttctgtcgt 
      cttgtgatt cgcctcgtg tccaccact ttgcccccg 
      ttacgtaat ttccgtaaa caaagaccg ggctgctgg 
      tcctcatca acagctgta gataaatcg cgagttggg 
      attgttttg cgtcttgcg atcgtagtg gtcttgtgt 
      aaatatttc ttaccgaaa aaaatgttg tcgtgccat 
      tgtctcaac gtgatcatc gaaactgaa ggcgacttg 
      cagaaagtc acccccgaa acgttggag ttgtctccg 
      gaggaggtg caagacagc ttcttcaaa caggacatt 
      cagcaagtc ggcaaatta attaatatt aataaatcc 
      cactcaggg ttgattgaa actagaaat gtaggcgct 
      tgggctatt cattgttgt attaattgt gatgttcat 
      tcgcatgca gtacatcga gaaaagggt gcttcctgt 
      gttctcgtc aactcgaag cttttcacc gagcagact 
      gtgaacaag ttacagaac agcgaagcc ttctccaag 
      ctgttcaag atcctcgtc aattctgac gaaattgtt 
      gacgacgat ttcacggga aattcatat ttgccaaac 
      gacgttgaa aatgtcatt cgggggctg aaacaaatc 
      gctgctgaa gccctgaag aatgaggca atcgctgtt 
      gaagacagg ataagacaa tttagtgac gaacagtac 
      aggaaactt aacgaactg agagagagg gcctttaga 
      gaacaacaa attttaaca aaaattatt ttaaataaa 
      tcgtcacaa caaacgaaa cctgcaagt acaaacacg 
      ggcatgtcc aatccgcag gggatgcca tcgagactg 
      aacgaacct ctagcggcc ggaagcgtc aaacccaca 
      tcgaacacc accccgagc gccccgcgg cacacgccc 
      aagcgccag aagagctgc cccctgaac caggtgaac 
      tcgttcgac accgaaggc ctgttcgag ttcgacggc 
      accgacgac aaccactcg ggcaccgcg tccgaagtc 
      gacgaaagc gacctggac gaggcgatg atccgtgaa 
      gacggcgtt aaaatcccg aaacgtggc acaaacacc 
      ggcattgcc aagtccctc ccgatgacg attccggcc 
      tttctggca cagacccga aaccggagt ttcgaagac 
      gtggacgaa gcgccacct gtcgaagcc aatacggac 
      atagcggcc agtattaag gcgctggcg aaaagtgtg 
      cacggtgat ccggttttc ggggattta cccaaaccg 
      agatacacc tacatttaa tatttaact tccggttat 
      ctcttcctg tagcgtcgc ttattggga ggtcatgtg 
      acacgctag tcgtcgcaa ttgttttgt gttgtgaat 
      gaggattgt gatcgaaat tatttttct acagagttc 
      ctcgaactg ttttcaagg ccagtggaa ggcagctga 
      gacgaggct gttgcttat tggggtaat aagggggct 
      tgtgtgagg ttggcaaca agcaatgat ggcccgttt 
      taagttacg ttggcaatt tttttgtta ctgtgttac 
      gttaaaatg acatcaaag tgtcaatga tctgatatt 
      tttagtcgt tacattttt tacttttta aagtttgcc 
      atttctttt ttaagtttg ttgagatgc attatggaa 
      acaaacgat tgaaaacct atgtacaac ttatagttt 
      gtaaattat ttttaatag ttaagaatt gtgaataag 
      caaatatat gacatgaaa tgaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY