Status
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Gene information
General information
TC006628 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_007423.3: 12099271..12102265
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
    TC006628
    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_01071

    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: 0.0% (includes death as pupa, adult)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: % (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
    • >TC006628 RA
      MVEIDFIQK EYPLHWLVW QNDYKQLDI LLKKKEDDK 
      EKLDNRGRT PLMLAVTLG HLESARSLL NNEANVNCE 
      NADGWTVVQ EAVATGDPE LLHMVLERR DFQRYSNRM 
      AGIPELLQK LKEAPDFYV EMKWEFTSW VPLVSRMCP 
      SDTYKVFKQ GSNVRIDTT LLGFDHTSW QRGNRSYVF 
      QGHSDGATM MEIDHDIQQ VYCEEMKAP DEALGVLIP 
      TEESVSQRL TTPIVTTYV DTDKISFER NKAGMWGWR 
      SDKSEAVNG HECKVFSAS NVELVTKTR TEHLTESDK 
      ARSRNNKTP LQNFLGIAE VEENQAAAA LQNEYTKSS 
      NPCNITPEE YFDSAVNLQ NRDIGRPKE ISVKVQKFK 
      ANLWLCEQY PLSLPEQIL PIVDLMAIS SSHFAKLKD 
      FIQMQLPSG FPVKIEIPL FHVLNARIT FGNIFGIDA 
      EVAHVHRIQ EEDRLTCVL DECIFQCPS GYSQIGNAA 
      SDGRRQFSM EEEDDLLQF AIQQSLIDA GTEKEEVDI 
      WEALKAQKP SRPATPNLV GEEERQLQR AIQASLELY 
      QKSTDSSET NAAADPDID SDLHMALML SEQERRKQE 
      EQRLQEEKI LEEILQLSL TEK
    CDS sequence
    • >TC006628 RA
      atggtcgaa atcgacttc atccaaaaa gaataccct 
      ttacactgg ttggtgtgg cagaacgac tataaacag 
      ttggatatt ttactgaaa aagaaagag gacgataaa 
      gaaaagttg gacaatcga gggcgaacc ccgctaatg 
      ctagccgtc accttgggt catttagag tcagctcgt 
      tcgttattg aataacgaa gccaacgta aactgtgaa 
      aatgcagat ggctggact gttgtacaa gaggcagtg 
      gccacgggt gacccggaa ctgttacat atggtttta 
      gaacggcgc gattttcaa cgatattcg aaccgcatg 
      gctggcatt ccagaactg ctccagaaa ctcaaagaa 
      gcgccagat ttctacgtg gaaatgaag tgggagttc 
      actagttgg gtgcctctg gtttcgcga atgtgcccc 
      agcgacact tacaaagtc ttcaaacaa ggctctaat 
      gtccggata gacaccact ttgctaggc tttgaccac 
      acgagctgg cagaggggc aacagaagc tacgtgttc 
      caaggccac agtgatggg gcaacaatg atggaaatc 
      gaccatgac atccaacag gtctattgt gaggagatg 
      aaggcgcct gacgaggct cttggcgtt ttaatccca 
      accgaagaa tcggtctct caaagactg acaaccccc 
      atagtcacg acatacgtg gacacggac aagatcagt 
      ttcgagagg aataaagcg ggcatgtgg ggctggaga 
      tctgataaa agtgaagcg gtgaacggg cacgagtgt 
      aaagtcttc agtgcgtcg aacgtggaa ctggtgacg 
      aaaacacga accgaacat ttaaccgaa agcgataaa 
      gcccgaagt agaaataat aaaacacca ctacagaat 
      tttctaggc attgcggaa gttgaagag aatcaagca 
      gccgcagcc cttcaaaac gaatacaca aagtcgagt 
      aatccgtgt aatataaca ccagaggag tatttcgac 
      tcggcggtg aatttacaa aatcgagac attggccga 
      cctaaggaa attagcgtt aaagtgcag aaattcaaa 
      gcgaattta tggctgtgt gagcaatac cccctatcg 
      ctgcccgaa cagattctt ccaattgtc gatctaatg 
      gccatttct agctcgcat ttcgccaaa ttgaaggac 
      tttatacag atgcagctg ccgtcgggt ttccccgtc 
      aaaatcgaa atccccctc tttcacgtg ctaaacgcg 
      aggataaca ttcggcaac attttcggg atagacgcg 
      gaagtggcg cacgtccac cggatacag gaagaggac 
      agattaacg tgtgtttta gacgagtgt attttccaa 
      tgtccctca ggatattct cagattggt aatgctgcg 
      tccgacggc cgcagacag ttcagtatg gaagaggaa 
      gacgatttg ttacaattt gcaattcag caaagttta 
      attgacgcc gggacggaa aaggaagag gtggacatt 
      tgggaggcc ttgaaagcc cagaaaccg tcgcgacct 
      gcgactcca aacctcgta ggtgaggag gaaaggcag 
      ttgcaaaga gctattcag gccagttta gagctttat 
      caaaagagt acagatagc agtgagact aacgcggcc 
      gctgatcct gacatagat tcggacctg cacatggct 
      ctcatgctg tcagagcag gaacgccga aagcaggaa 
      gagcaaaga ttgcaagag gaaaaaatc cttgaggaa 
      atactacaa ttgtctctg acggagaaa taa
    mRNA sequence
    • >TC006628 RA
      agcgtattt tgacgtttc tgactcatc aatcaaata 
      tggcgtctg gtagatagc acatctgtc atttcaaaa 
      attaaagtg ttaatttcg tcgtcatcg cttgtaaac 
      agcaaagtg tgaccatgt ttccgtcaa tataaaacg 
      tactcggtg ctaaaacac ttgaaaaaa tggtcgaaa 
      tcgacttca tccaaaaag aataccctt tacactggt 
      tggtgtggc agaacgact ataaacagt tggatattt 
      tactgaaaa agaaagagg acgataaag aaaagttgg 
      acaatcgag ggcgaaccc cgctaatgc tagccgtca 
      ccttgggtc atttagagt cagctcgtt cgttattga 
      ataacgaag ccaacgtaa actgtgaaa atgcagatg 
      gctggactg ttgtacaag aggcagtgg ccacgggtg 
      acccggaac tgttacata tggttttag aacggcgcg 
      attttcaac gatattcga accgcatgg ctggcattc 
      cagaactgc tccagaaac tcaaagaag cgccagatt 
      tctacgtgg aaatgaagt gggagttca ctagttggg 
      tgcctctgg tttcgcgaa tgtgcccca gcgacactt 
      acaaagtct tcaaacaag gctctaatg tccggatag 
      acaccactt tgctaggct ttgaccaca cgagctggc 
      agaggggca acagaagct acgtgttcc aaggccaca 
      gtgatgggg caacaatga tggaaatcg accatgaca 
      tccaacagg tctattgtg aggagatga aggcgcctg 
      acgaggctc ttggcgttt taatcccaa ccgaagaat 
      cggtctctc aaagactga caaccccca tagtcacga 
      catacgtgg acacggaca agatcagtt tcgagagga 
      ataaagcgg gcatgtggg gctggagat ctgataaaa 
      gtgaagcgg tgaacgggc acgagtgta aagtcttca 
      gtgcgtcga acgtggaac tggtgacga aaacacgaa 
      ccgaacatt taaccgaaa gcgataaag cccgaagta 
      gaaataata aaacaccac tacagaatt ttctaggca 
      ttgcggaag ttgaagaga atcaagcag ccgcagccc 
      ttcaaaacg aatacacaa agtcgagta atccgtgta 
      atataacac cagaggagt atttcgact cggcggtga 
      atttacaaa atcgagaca ttggccgac ctaaggaaa 
      ttagcgtta aagtgcaga aattcaaag cgaatttat 
      ggctgtgtg agcaatacc ccctatcgc tgcccgaac 
      agattcttc caattgtcg atctaatgg ccatttcta 
      gctcgcatt tcgccaaat tgaaggact ttatacaga 
      tgcagctgc cgtcgggtt tccccgtca aaatcgaaa 
      tccccctct ttcacgtgc taaacgcga ggataacat 
      tcggcaaca ttttcggga tagacgcgg aagtggcgc 
      acgtccacc ggatacagg aagaggaca gattaacgt 
      gtgttttag acgagtgta ttttccaat gtccctcag 
      gatattctc agattggta atgctgcgt ccgacggcc 
      gcagacagt tcagtatgg aagaggaag acgatttgt 
      tacaatttg caattcagc aaagtttaa ttgacgccg 
      ggacggaaa aggaagagg tggacattt gggaggcct 
      tgaaagccc agaaaccgt cgcgacctg cgactccaa 
      acctcgtag gtgaggagg aaaggcagt tgcaaagag 
      ctattcagg ccagtttag agctttatc aaaagagta 
      cagatagca gtgagacta acgcggccg ctgatcctg 
      acatagatt cggacctgc acatggctc tcatgctgt 
      cagagcagg aacgccgaa agcaggaag agcaaagat 
      tgcaagagg aaaaaatcc ttgaggaaa tactacaat 
      tgtctctga cggagaaat aattagggc caaaatata 
      catttttaa cgaaatttt ttcatacct cattcgtag 
      caatagctt tgggatgat aacaaagct cgttctttt 
      gacttaatc attgtaact ttatattcc aaatcaatg 
      ctccgggtt atacttaat cacagtttc ggttacttg 
      atcgttcct attatttat tatgatgtt cagagtttt 
      atttataac gtaccatgt aacaggtgc ttaagtgac 
      acagtaaat caattttgt ttgttaacg atatgtaca 
      taatcttta ataaaat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY