Status
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Gene information
General information
TC005079 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.

NW_015451028.1: 34..1789
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
      TC005079
      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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      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.

      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_00801

      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 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: 30.0% (includes death as larva, prepupa, pupa, adult)

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


      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC005079 RA
        MRAISEFPT PKNIHELKR FLGLTSYFR RFLRNYAIR 
        ARPLTDLTK KTQTFTWGE DQSAAFEDL RDSLCAEPE 
        LYNPKATIT ELHTDACSA GVAGMLLQT DSAGQLHPV 
        YYISKKTTD VEEKYHSTK LELMAIKHR PGGRMAHVD 
        ALSRAPVDD SQDTRDHIH ERLEVLQTL DETDYVLMI 
        QYGDAALRE LIPILKKPN EERTPVKRQ RVLFYKLDS 
        ARLLRNVNV NGTEKWLYV IPKSMRKSI VVKHHDQLG 
        HFGVDRTVA KIRERYWFS KMKQYVQRH ISACAECLL 
        NKIPSGKRP GELHPPRPP RRPFEKIHL DHVGPLVKT 
        DDENSYTLV VIDALTKFV KLYPTKSTK SNESVSALQ 
        NCIDNYGIP RLVVADQGS CFKSDEFGK FCDSLGIQV 
        LLIPSRWPQ ANGQVERVM RTLIPTLMC EMDIEEQWD 
        KKIVKVERN LNSMLNKTT GRAPFEALH GYLPVFDDG 
        KLTKLAEGE DCTWNPPEN IQPDNHRKL KPNI
      CDS sequence
      • >TC005079 RA
        atgagagcc atatcagag tttccaact ccgaaaaat 
        attcatgaa ttgaagaga ttcttagga ctaacaagt 
        tattttcgg agatttttg cgaaactac gcaatacgt 
        gcccgacct ttgacggat ttgacaaag aagactcag 
        acatttacg tggggtgaa gaccaaagt gcagctttt 
        gaggatttg cgcgatagt ttgtgtgct gaaccggaa 
        ctgtataat ccaaaagcg actataacc gaattacat 
        acggacgcg tgtagtgcg ggcgtggcg ggaatgcta 
        cttcaaacg gacagtgca ggacaacta caccccgtg 
        tattatatc tcgaagaaa actactgac gttgaggag 
        aagtatcac tcgacgaaa ttagaactg atggcgatt 
        aaacatcgt ccaggcgga agaatggcc catgtggat 
        gccctttcc cgtgctcct gtcgatgat tctcaagac 
        actcgtgat cacattcat gagagacta gaagtcctg 
        caaacactc gacgaaacc gactacgtg ctaatgatt 
        caatatgga gatgctgca cttcgtgag ctaatccca 
        attttgaaa aaacctaat gaagagaga acaccagtg 
        aaacgtcag cgagtgctt ttctacaag ctagatagt 
        gcgagacta ctcagaaat gttaatgtg aatggtact 
        gaaaaatgg ctgtatgtg atcccaaaa tcgatgagg 
        aaaagtatt gtggtgaaa catcacgac caattagga 
        catttcggc gtcgaccga acagttgca aaaattcga 
        gaaagatat tggttttcg aagatgaaa caatatgta 
        caaagacat atcagtgcg tgtgcggag tgtttacta 
        aataaaatc ccatcagga aagcgaccc ggagagcta 
        cacccaccg agaccacca cgacgacct ttcgaaaaa 
        attcattta gaccatgta ggcccttta gtaaaaacc 
        gacgacgaa aattcttac actcttgtg gtaatcgat 
        gctttaacg aagtttgtg aaactgtac cccacgaag 
        agtacaaaa tccaatgaa agtgtaagc gccttacaa 
        aactgtatt gacaattat ggaataccc cgtctcgta 
        gtggcggac cagggttcc tgtttcaaa tcagatgaa 
        ttcggtaaa ttttgcgac agcttaggc atacaggtt 
        ttattaata ccttcccgg tggcctcaa gcaaatgga 
        caagtggaa agagtaatg cgaactctt atacccaca 
        ttaatgtgc gaaatggat atcgaagaa caatgggac 
        aaaaagatt gtcaaggta gaacgcaat ttaaattct 
        atgctgaat aaaaccact ggtagagct ccatttgaa 
        gcccttcat ggatactta cccgtgttc gacgatggg 
        aaactcact aagcttgca gaaggcgaa gattgtact 
        tggaatcct cccgaaaat atccaaccg gacaatcat 
        cgaaaacta aagccaaat atttag
      mRNA sequence
      • >TC005079 RA
        agacaagtt aaaaatggt tttaacggc tcttaagaa 
        agcaaagtt aacttttaa attgcgtaa atgtgtatt 
        tggatcaaa agaaattga atttcttgg ctacacaat 
        ttcaagtga gaagatgca accagctaa atccaaaat 
        gagagccat atcagagtt tccaactcc gaaaaatat 
        tcatgaatt gaagagatt cttaggact aacaagtta 
        ttttcggag atttttgcg aaactacgc aatacgtgc 
        ccgaccttt gacggattt gacaaagaa gactcagac 
        atttacgtg gggtgaaga ccaaagtgc agcttttga 
        ggatttgcg cgatagttt gtgtgctga accggaact 
        gtataatcc aaaagcgac tataaccga attacatac 
        ggacgcgtg tagtgcggg cgtggcggg aatgctact 
        tcaaacgga cagtgcagg acaactaca ccccgtgta 
        ttatatctc gaagaaaac tactgacgt tgaggagaa 
        gtatcactc gacgaaatt agaactgat ggcgattaa 
        acatcgtcc aggcggaag aatggccca tgtggatgc 
        cctttcccg tgctcctgt cgatgattc tcaagacac 
        tcgtgatca cattcatga gagactaga agtcctgca 
        aacactcga cgaaaccga ctacgtgct aatgattca 
        atatggaga tgctgcact tcgtgagct aatcccaat 
        tttgaaaaa acctaatga agagagaac accagtgaa 
        acgtcagcg agtgctttt ctacaagct agatagtgc 
        gagactact cagaaatgt taatgtgaa tggtactga 
        aaaatggct gtatgtgat cccaaaatc gatgaggaa 
        aagtattgt ggtgaaaca tcacgacca attaggaca 
        tttcggcgt cgaccgaac agttgcaaa aattcgaga 
        aagatattg gttttcgaa gatgaaaca atatgtaca 
        aagacatat cagtgcgtg tgcggagtg tttactaaa 
        taaaatccc atcaggaaa gcgacccgg agagctaca 
        cccaccgag accaccacg acgaccttt cgaaaaaat 
        tcatttaga ccatgtagg ccctttagt aaaaaccga 
        cgacgaaaa ttcttacac tcttgtggt aatcgatgc 
        tttaacgaa gtttgtgaa actgtaccc cacgaagag 
        tacaaaatc caatgaaag tgtaagcgc cttacaaaa 
        ctgtattga caattatgg aataccccg tctcgtagt 
        ggcggacca gggttcctg tttcaaatc agatgaatt 
        cggtaaatt ttgcgacag cttaggcat acaggtttt 
        attaatacc ttcccggtg gcctcaagc aaatggaca 
        agtggaaag agtaatgcg aactcttat acccacatt 
        aatgtgcga aatggatat cgaagaaca atgggacaa 
        aaagattgt caaggtaga acgcaattt aaattctat 
        gctgaataa aaccactgg tagagctcc atttgaagc 
        ccttcatgg atacttacc cgtgttcga cgatgggaa 
        actcactaa gcttgcaga aggcgaaga ttgtacttg 
        gaatcctcc cgaaaatat ccaaccgga caatcatcg 
        aaaactaaa gccaaatat ttaggaccg ttaacagtt 
        attgagaaa ttg
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY