Status
Please wait ...
Gene information
General information
TC008348 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_007419.2: 8898610..8900537
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
    TC008348
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04472

    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


    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: 50.0% (includes death as larva, prepupa, pupa, adult)

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


    adult lethality - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008348 RA
      MKLHTFLTT YLTINFASC NTIDSGNDY DFIIVGAGS 
      AGSVIASRL SENLIWKIL LLEAGDEGN LISSIPTAV 
      SLLPFTKYN WGHFMEVQP NLAQSYNDN RMPWHKGRG 
      LGGTSLINY MIYTRGNRF NYDQWAAQG NPGWSYADV 
      LPYFIKSEN CSVKNADYA FHGVDGYLG ISEPFQTKI 
      TDVFLKGLH ELGLPFIDY NSNKTLGAS PIQANIFQG 
      RRHTSADAF LKPVKHRFN LHIKTRAFA RKVLIDEKT 
      KHAFGVEYE VSGKIFKAM ARKEVILSA GVINSPQLL 
      MLSGIGPKQ ELGQLGISV LKDLQVGRN LQDNLAFLG 
      LNFVTPEDV TLRFSKFVN LVSIYEVFE SRTGPWVGA 
      GGAQAIAYI KTDESEELG PVPDMELLL IGGSLSTDY 
      GLILRTGMN IRDDVYNSL FAPTEGKNS FMIFLSHLT 
      PKSKGYIKL RSADPHDYP LMYGNYFTD PGNKDINTF 
      LAAVRYVQK LIQTETFKK FKITLIDNP VPGCTHHQY 
      DSDDYWRCF LRSLIQTFN HQVGTAKMG PKNDPDAVV 
      NHKLEVYGV KGLRVADCS VIPFALSAH TNAPAMMVG 
      EKAADIIKN AWKDNLW
    CDS sequence
    • >TC008348 RA
      atgaagctt cacaccttt ttaacaact tacctcacc 
      attaatttt gcatcatgt aacaccatt gattcaggc 
      aacgactac gattttata attgttggt gctggctca 
      gctggaagt gttatagcg agccgatta tcagaaaat 
      ctcatttgg aaaattctt cttctcgaa gccggagac 
      gaaggcaac ctcatctcg tcaatacca acagcagtg 
      tctctccta cctttcact aaatacaac tggggacac 
      tttatggaa gtccaacca aacttggcc cagtcctac 
      aacgacaat cgaatgcct tggcacaag ggccgaggc 
      ttaggcggc acttccctt atcaactac atgatatac 
      acccgtgga aataggttc aattacgac cagtgggcc 
      gcacaaggc aacccaggt tggtcctac gccgacgtt 
      ctaccctat tttatcaaa tcagaaaac tgcagcgtg 
      aaaaacgcg gattatgcc tttcacggt gtggacggt 
      tatttgggt atctctgag ccgtttcaa actaaaatc 
      accgatgtt ttcctcaaa gggctccac gagctgggg 
      ctaccattt attgattat aactcaaac aaaacttta 
      ggagcttcg ccgattcaa gcgaatatt tttcaaggc 
      aggagacac acaagtgcc gatgcgttc ctcaaaccg 
      gtgaaacac aggtttaat cttcacatc aaaacgaga 
      gctttcgct cggaaagtc ctaattgat gagaagaca 
      aaacacgcg tttggtgtt gaatacgaa gtttcgggc 
      aaaatattt aaagccatg gctcggaaa gaagtgatt 
      ttgtcagcc ggtgttata aattcgccc cagctgctt 
      atgctttca gggattggg ccgaagcaa gaattagga 
      caattggga atttctgtt ttaaaagac ctccaagtt 
      gggagaaat ctgcaagac aatttggct tttctagga 
      ctcaatttt gtgacgcct gaagacgtt acattgcgt 
      ttctcaaaa tttgtcaac cttgttagt atctacgaa 
      gtgtttgag agtaggacg gggccatgg gttggtgca 
      ggaggtgcc caagctatc gcctatata aagacggac 
      gaatccgag gaattaggg cctgtgcct gatatggaa 
      ttattgcta atcggagga tctttatcg accgattat 
      ggcctaatt ctccggaca ggaatgaat attagagac 
      gatgtttac aattcgctt tttgcccca actgaaggg 
      aaaaattcc tttatgatc ttcctctca cacttgacc 
      ccgaaatcg aaaggatat ataaaactc cggtcggct 
      gaccctcac gactacccc ctcatgtat ggaaattat 
      ttcacagat ccgggaaat aaagacata aatacgttt 
      ctggctgcg gttagatac gtgcaaaag ctcattcag 
      acggaaact ttcaaaaaa ttcaaaata actcttatc 
      gataatccg gttcctggc tgcacacat caccagtac 
      gatagtgat gattattgg aggtgtttc ctccgatcg 
      cttatacaa acttttaat catcaagtc gggacggca 
      aaaatgggg cccaagaat gaccccgat gctgtggtg 
      aatcacaaa ttggaagtt tacggggtt aagggattg 
      cgagtggct gattgtagt gttattcct tttgcactg 
      agtgcacac actaatgcc ccagctatg atggtgggc 
      gaaaaggca gccgatatt atcaaaaat gcgtggaag 
      gataattta tggtaa
    mRNA sequence
    • >TC008348 RA
      ccatttcac aaaaatcca aattagttc caccaacac 
      atcatgaag cttcacacc tttttaaca acttacctc 
      accattaat tttgcatca tgtaacacc attgattca 
      ggcaacgac tacgatttt ataattgtt ggtgctggc 
      tcagctgga agtgttata gcgagccga ttatcagaa 
      aatctcatt tggaaaatt cttcttctc gaagccgga 
      gacgaaggc aacctcatc tcgtcaata ccaacagca 
      gtgtctctc ctacctttc actaaatac aactgggga 
      cactttatg gaagtccaa ccaaacttg gcccagtcc 
      tacaacgac aatcgaatg ccttggcac aagggccga 
      ggcttaggc ggcacttcc cttatcaac tacatgata 
      tacacccgt ggaaatagg ttcaattac gaccagtgg 
      gccgcacaa ggcaaccca ggttggtcc tacgccgac 
      gttctaccc tattttatc aaatcagaa aactgcagc 
      gtgaaaaac gcggattat gcctttcac ggtgtggac 
      ggttatttg ggtatctct gagccgttt caaactaaa 
      atcaccgat gttttcctc aaagggctc cacgagctg 
      gggctacca tttattgat tataactca aacaaaact 
      ttaggagct tcgccgatt caagcgaat atttttcaa 
      ggcaggaga cacacaagt gccgatgcg ttcctcaaa 
      ccggtgaaa cacaggttt aatcttcac atcaaaacg 
      agagctttc gctcggaaa gtcctaatt gatgagaag 
      acaaaacac gcgtttggt gttgaatac gaagtttcg 
      ggcaaaata tttaaagcc atggctcgg aaagaagtg 
      attttgtca gccggtgtt ataaattcg ccccagctg 
      cttatgctt tcagggatt gggccgaag caagaatta 
      ggacaattg ggaatttct gttttaaaa gacctccaa 
      gttgggaga aatctgcaa gacaatttg gcttttcta 
      ggactcaat tttgtgacg cctgaagac gttacattg 
      cgtttctca aaatttgtc aaccttgtt agtatctac 
      gaagtgttt gagagtagg acggggcca tgggttggt 
      gcaggaggt gcccaagct atcgcctat ataaagacg 
      gacgaatcc gaggaatta gggcctgtg cctgatatg 
      gaattattg ctaatcgga ggatcttta tcgaccgat 
      tatggccta attctccgg acaggaatg aatattaga 
      gacgatgtt tacaattcg ctttttgcc ccaactgaa 
      gggaaaaat tcctttatg atcttcctc tcacacttg 
      accccgaaa tcgaaagga tatataaaa ctccggtcg 
      gctgaccct cacgactac cccctcatg tatggaaat 
      tatttcaca gatccggga aataaagac ataaatacg 
      tttctggct gcggttaga tacgtgcaa aagctcatt 
      cagacggaa actttcaaa aaattcaaa ataactctt 
      atcgataat ccggttcct ggctgcaca catcaccag 
      tacgatagt gatgattat tggaggtgt ttcctccga 
      tcgcttata caaactttt aatcatcaa gtcgggacg 
      gcaaaaatg gggcccaag aatgacccc gatgctgtg 
      gtgaatcac aaattggaa gtttacggg gttaaggga 
      ttgcgagtg gctgattgt agtgttatt ccttttgca 
      ctgagtgca cacactaat gccccagct atgatggtg 
      ggcgaaaag gcagccgat attatcaaa aatgcgtgg 
      aaggataat ttatggtaa aatgactca gagacttga 
      aatataaat agattgtac cagtggttt aataaaaaa 
      cattttcaa ta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY