Status
Please wait ...
Gene information
General information
TC008606 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_007422.5: 15859023..15892251
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
    TC008606
    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_01371

    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: 2 (3 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 7 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008606 RA
      MSKWRTFVR NNLLTILTV VGVIAGTAV GCTLRTLSK 
      GKWNQRETM YLMFPGEIF LRMLKSLII PLLMSSIIS 
      AVGSLDLSL SKKIAFRSI LYYATTTVS AVILGIILV 
      VTIRPGAGG VAASVNELS KDEGLKRKV LTQDTLLDL 
      IRNLFPPNL IQACVQQSQ TILIQPKNF SGDADNVTS 
      ADLVHWPFK ENYENTTNV LGLVVFSIV LGISLGQMG 
      DSGKVLCDF FQTLSEAMM NITSWVIWI SPLGVFFLV 
      ASKMVETDS FLDQLHRLS FYFATVLLG LVLHGFGTI 
      SLIYFIAVR RLPFKVIGQ LSQVLATAF GTASSSATM 
      PITIQTLDK MGLDPRITR FVIPVGATI NMDGTALYE 
      AVAAIFIAQ LRNVEMSFG KTVAVCVTA TAASIGAAG 
      IPQAGLVTM VMVLDTVGL PAEEVINIL AVDWLLDRF 
      RTTINVMCD CIGARLVDL LSVGELDKI TEMDRLNAD 
      PQELVEMSK DVHN
    CDS sequence
    • >TC008606 RA
      atgtcgaag tggagaact ttcgtccgc aacaatctc 
      ctgacaatc cttacggtc gtgggcgtg atagcaggt 
      accgcggtc ggctgtact ttgagaacg ctttccaaa 
      ggaaaatgg aatcagaga gaaaccatg tatttgatg 
      tttcccgga gaaatattc ctccggatg ctcaaatcg 
      ctcatcatt ccgctgctg atgtcgtcc attatttcg 
      gccgtcggc agtttagat ttgagttta tcgaaaaaa 
      atcgctttt agatcgatt ctttattat gcgacgacg 
      acggtgtca gccgtcatc ttaggaatc atcctcgtc 
      gtgacgatc agacctggg gcaggcggt gtcgccgcc 
      tccgtgaac gaactcagc aaagacgag ggactgaaa 
      aggaaagta cttacgcag gatacgctg ctagacttg 
      atcagaaat ctgttccct cctaatctg atccaagct 
      tgcgtccaa cagtcacaa accatcctg attcagcct 
      aagaatttt agcggagac gcagacaat gttacttcg 
      gcggatttg gtccattgg ccattcaag gagaattac 
      gagaataca acgaacgtt ttgggtttg gtggttttc 
      agcatcgtc ctcgggatc agtttgggt cagatggga 
      gacagtggg aaagtcctc tgtgatttt ttccaaact 
      cttagcgaa gccatgatg aacataact agttgggtg 
      atatggatt tcccccttg ggtgtgttc ttcctcgtg 
      gccagcaaa atggtcgag acggacagt tttctcgac 
      caacttcac cggctcagc ttctacttc gccaccgtc 
      ctcctcggg ctggtgctg cacggcttc ggcaccatc 
      tctctgatc tacttcatc gctgtgcgc cgccttccg 
      ttcaaggtg attgggcag ctgagccag gtcctggcc 
      actgccttc ggcacggcc tctagctcg gcgacgatg 
      cccatcact atccaaact ctggacaag atggggctc 
      gacccacgc atcacgcgc ttcgtcatc cccgtaggc 
      gccaccatt aacatggac ggcacggcg ctgtacgag 
      gccgtggcc gccatcttc atagcgcag ctgaggaac 
      gtggagatg tcgttcggg aaaacggtg gccgtttgt 
      gtgacggca acggcggca agtattgga gcggcgggg 
      atcccacaa gctggcctc gtcactatg gtgatggtc 
      ctcgatacg gtaggatta cccgccgag gaagtaatt 
      aacatcctg gcggtcgat tggctcttg gatcgtttc 
      cgcaccacc atcaatgtg atgtgcgac tgcataggc 
      gcccgctta gtagacctt cttagcgtg ggcgaactg 
      gataaaatc actgagatg gataggctg aatgccgat 
      ccacaggaa ttagtcgaa atgtctaag gacgtgcac 
      aattag
    mRNA sequence
    • >TC008606 RA
      catcaatcg tataacctt acaatacga aaataataa 
      acgaatttt acatctatc attttaggt gaagctcaa 
      aaatgtcga agtggagaa ctttcgtcc gcaacaatc 
      tcctgacaa tccttacgg tcgtgggcg tgatagcag 
      gtaccgcgg tcggctgta ctttgagaa cgctttcca 
      aaggaaaat ggaatcaga gagaaacca tgtatttga 
      tgtttcccg gagaaatat tcctccgga tgctcaaat 
      cgctcatca ttccgctgc tgatgtcgt ccattattt 
      cggccgtcg gcagtttag atttgagtt tatcgaaaa 
      aaatcgctt ttagatcga ttctttatt atgcgacga 
      cgacggtgt cagccgtca tcttaggaa tcatcctcg 
      tcgtgacga tcagacctg gggcaggcg gtgtcgccg 
      cctccgtga acgaactca gcaaagacg agggactga 
      aaaggaaag tacttacgc aggatacgc tgctagact 
      tgatcagaa atctgttcc ctcctaatc tgatccaag 
      cttgcgtcc aacagtcac aaaccatcc tgattcagc 
      ctaagaatt ttagcggag acgcagaca atgttactt 
      cggcggatt tggtccatt ggccattca aggagaatt 
      acgagaata caacgaacg ttttgggtt tggtggttt 
      tcagcatcg tcctcggga tcagtttgg gtcagatgg 
      gagacagtg ggaaagtcc tctgtgatt ttttccaaa 
      ctcttagcg aagccatga tgaacataa ctagttggg 
      tgatatgga tttccccct tgggtgtgt tcttcctcg 
      tggccagca aaatggtcg agacggaca gttttctcg 
      accaacttc accggctca gcttctact tcgccaccg 
      tcctcctcg ggctggtgc tgcacggct tcggcacca 
      tctctctga tctacttca tcgctgtgc gccgccttc 
      cgttcaagg tgattgggc agctgagcc aggtcctgg 
      ccactgcct tcggcacgg cctctagct cggcgacga 
      tgcccatca ctatccaaa ctctggaca agatggggc 
      tcgacccac gcatcacgc gcttcgtca tccccgtag 
      gcgccacca ttaacatgg acggcacgg cgctgtacg 
      aggccgtgg ccgccatct tcatagcgc agctgagga 
      acgtggaga tgtcgttcg ggaaaacgg tggccgttt 
      gtgtgacgg caacggcgg caagtattg gagcggcgg 
      ggatcccac aagctggcc tcgtcacta tggtgatgg 
      tcctcgata cggtaggat tacccgccg aggaagtaa 
      ttaacatcc tggcggtcg attggctct tggatcgtt 
      tccgcacca ccatcaatg tgatgtgcg actgcatag 
      gcgcccgct tagtagacc ttcttagcg tgggcgaac 
      tggataaaa tcactgaga tggataggc tgaatgccg 
      atccacagg aattagtcg aaatgtcta aggacgtgc 
      acaattaga ttctcactc aacacccta tagtttccc 
      gtttatttg ttttttatt ttaatttat gttagctaa 
      atgtgcgtc agaagtagg acgatgcta cgtggtgtg 
      acaataact gtacagtaa ttcccaatt tggggcttt 
      tgacgttgc atcaacacc tttcggcac ttgatacct 
      tcagtgtac atatcatgt cataatagt aaatgtcgt 
      ttagaatcc ataactgtc agtaatttg ttgatgagc 
      aaaatattt aaatgttgg tagttggga gtcaccaac 
      tacgaaaaa tgaatgttc gacgtttgt tggaatgcg 
      ttttttttt tctgttcaa gtataggga ccaattttt 
      atttaattg accatcaaa tcggttcaa cttaaagct 
      aattacaga gatatgtta cgttttaaa attatatta 
      aatttttag atacctaag ttataagta taattcgaa 
      attgttata tatagttta taatgaatt ttatcgcaa 
      gtacgttgt tgtgtaact tattcatag ataattatg 
      ataaaactc gtgaaattt tcggatttc atgggtttt 
      agtcacaaa ttcaagaca ataactgcc gttatattg 
      taatttaaa tgtaagaag aaagaggtg ccatattct 
      atcccacgt tgttccgat atttctaca aaatattgg 
      ggtacttct ccttaattt tttgattta ttattttgt 
      tttgataat atatgtgta gaataagg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY