Status
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Gene information
General information
TC006419 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: 8776135..8804829
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
    TC006419
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08916

    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


    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    Fertility
    vitellogenic egg chamber late not present - Number of animals showing the phenotype: 1

    mature egg not present - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    head cuticle ventral posteriorstructure irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head posterior potentiallyconstricted - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: % (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
    • >TC006419 RA
      MSVVDSGLP WLRYLPPLP LTLPLTMRE KDSSPRKML 
      VASGGHSSP KQAAVYPLS IRVPPGDEM PFDLSRNTR 
      SPGPHMSPA GRPPPGPQD GDDQPLDLR VEHKKLSLM 
      IIRRQVEDE NRNLISPAV SVNSDKDDV IVDERSSPT 
      HSVPKTFSP QIPGYPGML FPPQPIHPM MLEAMYRAQ 
      GDKVPRLPL PYPSSPPGY PQRYPFLSP SMLSPPVNQ 
      VPFDMLRNP TPQTPKVYD TAGGKMKDR YACKFCGKV 
      FPRSANLTR HLRTHTGEQ PYKCRYCER SFSISSNLQ 
      RHVRNIHNK EKPFKCPLC ERCFGQQTN LDRHLKKHE 
      ADGPTILDE RNLQRRTMA SRNLSEESY FEEIRSFMG 
      KVTDGRLLQ HLQPPKQMP NFPITLPPK LFDAKSSQE 
      KSPDDAKRD SSYFSDKDN FSSRSSSSS EKDEEEKPQ 
      EKSEESTKS EEDISNNNN T
    CDS sequence
    • >TC006419 RA
      atgagtgtg gtagactcg ggcctcccc tggctccgg 
      tatttgccc ccgctgccc ttgactctc cccctcacc 
      atgcgcgaa aaagactcc tcacctcgc aagatgttg 
      gtggcttct ggcggccac agctcgccc aagcaggcg 
      gccgtctac ccgctctcc atccgggtt cccccggga 
      gacgagatg cccttcgat ctgtcccgc aacacgcgc 
      tcgccgggc ccgcacatg tcgcccgcg gggcgcccg 
      cccccgggc ccgcaggac ggcgacgac cagcccctc 
      gacctgcgc gtcgagcac aagaagctc tcgctgatg 
      atcatccgg aggcaggtc gaggacgaa aacagaaac 
      ctaatctcg ccggctgtt agtgtgaat agtgataaa 
      gacgatgtt atcgtggac gaacgcagc agtcccacg 
      cactcggta ccaaaaacg ttcagtccc cagattccc 
      gggtacccc gggatgctg ttcccgccc caacccatc 
      caccccatg atgctcgag gcgatgtat cgggcgcag 
      ggggacaaa gtcccgcgc ttgccgctc ccgtacccc 
      agctccccg ccggggtac ccccagagg taccccttc 
      ctaagtccc tcaatgctg agtcctccg gtgaatcaa 
      gttcctttt gacatgttg aggaatccg acgcctcaa 
      acgcccaaa gtttacgac actgcaggt ggtaaaatg 
      aaagacaga tacgcttgt aagttctgt ggtaaagtt 
      ttccctcga tcggccaat ttgactaga catttacgg 
      acgcatacg ggggaacaa ccctacaaa tgtcgatac 
      tgtgaacgc tcctttagt atttcgagt aatttgcaa 
      agacacgtg aggaacatc cacaacaag gaaaaaccc 
      ttcaaatgc ccgctctgt gagaggtgt ttcggccaa 
      caaaccaac ctcgatcga catttgaag aagcacgaa 
      gccgatggg cccacgata ctcgacgaa cggaacctc 
      caaaggcga accatggcg tcgaggaac ctgagcgaa 
      gaatcctac tttgaggaa attagaagt ttcatgggc 
      aaagtcaca gacggacga ctcctccaa cacctacag 
      ccaccaaaa cagatgcca aactttcca atcacacta 
      ccgccgaaa ctcttcgat gccaaatca agtcaagag 
      aagagtccc gacgatgcc aagcgggac tcgtcctac 
      ttctcggac aaggacaac ttctcgtcg aggtcctcg 
      agcagctca gagaaagac gaagaagag aaaccgcag 
      gagaagagc gaagaaagc acgaaatca gaagaagat 
      atctcaaac aataacaat acctga
    mRNA sequence
    • >TC006419 RA
      cggtgggaa cgcacgctt agcgctttt cgcgatcct 
      gcacacgtg tgtaccgac gatgatcag gaattgagt 
      gtcttgtgc cggcgttca agtctccgg attttcggc 
      ggataattt cacttcaga cacaagaac gagtattgt 
      gttaaagtt cacttgtct gaaactgaa aagtgaaac 
      agtcgcagg tgttcgagg cgtggtgtg tggacacat 
      cttcgccga ttttcagtg agtgaacag aatggcttt 
      tgtccagcg ccacatgcg gaaatttgt gacttgtga 
      atgatttag actgaaaaa ctgacatct cccaacggt 
      gcaataaaa attaagatc catctcctg aattcccat 
      gagtgtggt agactcggg cctcccctg gctccggta 
      tttgccccc gctgccctt gactctccc cctcaccat 
      gcgcgaaaa agactcctc acctcgcaa gatgttggt 
      ggcttctgg cggccacag ctcgcccaa gcaggcggc 
      cgtctaccc gctctccat ccgggttcc cccgggaga 
      cgagatgcc cttcgatct gtcccgcaa cacgcgctc 
      gccgggccc gcacatgtc gcccgcggg gcgcccgcc 
      cccgggccc gcaggacgg cgacgacca gcccctcga 
      cctgcgcgt cgagcacaa gaagctctc gctgatgat 
      catccggag gcaggtcga ggacgaaaa cagaaacct 
      aatctcgcc ggctgttag tgtgaatag tgataaaga 
      cgatgttat cgtggacga acgcagcag tcccacgca 
      ctcggtacc aaaaacgtt cagtcccca gattcccgg 
      gtaccccgg gatgctgtt cccgcccca acccatcca 
      ccccatgat gctcgaggc gatgtatcg ggcgcaggg 
      ggacaaagt cccgcgctt gccgctccc gtaccccag 
      ctccccgcc ggggtaccc ccagaggta ccccttcct 
      aagtccctc aatgctgag tcctccggt gaatcaagt 
      tccttttga catgttgag gaatccgac gcctcaaac 
      gcccaaagt ttacgacac tgcaggtgg taaaatgaa 
      agacagata cgcttgtaa gttctgtgg taaagtttt 
      ccctcgatc ggccaattt gactagaca tttacggac 
      gcatacggg ggaacaacc ctacaaatg tcgatactg 
      tgaacgctc ctttagtat ttcgagtaa tttgcaaag 
      acacgtgag gaacatcca caacaagga aaaaccctt 
      caaatgccc gctctgtga gaggtgttt cggccaaca 
      aaccaacct cgatcgaca tttgaagaa gcacgaagc 
      cgatgggcc cacgatact cgacgaacg gaacctcca 
      aaggcgaac catggcgtc gaggaacct gagcgaaga 
      atcctactt tgaggaaat tagaagttt catgggcaa 
      agtcacaga cggacgact cctccaaca cctacagcc 
      accaaaaca gatgccaaa ctttccaat cacactacc 
      gccgaaact cttcgatgc caaatcaag tcaagagaa 
      gagtcccga cgatgccaa gcgggactc gtcctactt 
      ctcggacaa ggacaactt ctcgtcgag gtcctcgag 
      cagctcaga gaaagacga agaagagaa accgcagga 
      gaagagcga agaaagcac gaaatcaga agaagatat 
      ctcaaacaa taacaatac ctgacttta ggtaacctt 
      gtgatacgc gatgtcctt ttcaaaatt gtcaaatct 
      gaatttggt acaaattga taaaaacga gccggccac 
      ttggccggc agctcagca ggtggtact ccactcaga 
      ttgtgatta tattataaa accaaattg ttgttcacg 
      ttgttacgc aatttcgag agagcaatt aaaaatctt 
      taatgtcct aatttgttt gggagctct gcaggatcg 
      acctccgaa atttattaa caggagctg ataaaagcc 
      gctccgaca cgcaaacgg tgctgaatt gataatttt 
      ctcacagga tgtgtcaca acatcataa tcatgaccg 
      gctgggaca cgtggaagg caattaacg gagaaatat 
      gagaaaagt acccaactt aattggaac aaatttacg 
      aataaaaat cgtggttta ttgtgacca cttgcatca 
      ccggctttc tccaaaaat gttaatacc gttagatct 
      gaaataaat cgctgatat tttcgcgtt gtaatcaat 
      catccggtt gcagaatca ccgaaccat caatctcgc 
      ctcacccga gggtgcttt cggttttcg gaaaagcga 
      tcaggaagc gtcccatcg ccaaataaa gccgtttca 
      ggaattcta aacctgcag cgtcaacca gtcgcttta 
      attaagaac ggaaattaa cagcgcttt taacgcaga 
      attagccat aaatgtagg caattaaga gtgatagtt 
      gagacacaa attactcgc ctcggaata ttttaaagt 
      aaatcacac gattttttt ttaattgat tgattccga 
      gtaacgagc tgaaagtga tcgattttg aggccggtc 
      tcttccgga aaattaagt cggaacgag ttgaaaata 
      tttctgctt ttttattca taaaacgag ttattggaa 
      agatgcgta tcgggatgg gaacggatg tcaggaatg 
      cttcacaaa gtaacagtc gtctcatat tccataaat 
      ttcgatgtt tttgccaat tcgagattt acgagggga 
      aaatatgga attatggac gtggactga aatagcgtt 
      acgcactcg gccatcatt ttaatacgg gcctggagc 
      gctcctaat ctccaataa tctcggaca tgttcctcg 
      tgttgctac aacaattct ggatcgaga taatggctt 
      taatcaaat aaatgtcta tatttatgg ctttgggcc 
      aaacatggt gctttcaac ggttcttcc tcggcttaa 
      aaatagagc tagacccgg cggcaatcg catctcaaa 
      attcaccaa aaagcccca ctcaacagc tgtttgttt 
      acaataatt gaggcgtta aaccggctt tctcctcgt 
      gcatttttg acaaaaatt gatcacctc acggccgca 
      aacccttca ttagttttc gcgctgcaa gccgaccat 
      ctgctcctg cattttcca agaggtcat ctcgagatt 
      agtacctcg gtaaaataa aattcaaac tagttcagt 
      ttctcggca aggaagtgg gtggaacta acagcgtcc 
      aagcctgaa ggcatctct ttaaccgac tccgtaaac 
      gatacgctc cgaacagat cttccatag ataaatccg 
      ttttgaaag aataaccag ccgcttaca ccaagccaa 
      taaattacg aaacggttc tgatttaat ttacacgat 
      tgacaagtg cggattgcg cgctcggaa tcatcgtta 
      atgacacgt cagcacaga caatttgtt tgcttaacc 
      tttggagat actccatgt cgtcggtga ttactctct 
      tgatcgata ttagcgcag ggaagaaaa acacaccga 
      tgtattcat atttaattg ccgatgttg cctttgcac 
      aatactatc attcataat gctgtcgtt atcgctaat 
      gttttctaa gctgatttt actccatca ttcttcatt 
      cccattacc ataaaaatt ctaccgggg attacacgg 
      gaccattaa ttatgcttt tg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY