Status
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Gene information
General information
TC014161 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_007420.3: 6965060..6966927
Sequence information
Transcripts / Proteins (2) 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
      TC014161
      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
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      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_05575

      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: 30.0% (includes death as pupa, adult)

      pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
      Days post injection


      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
      Days post injection


      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): less than 30%

      Comment: Probably no real muscle fluorescence.
      embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

      embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%
      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: > 50
      egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
      larva segment partially randomnot present - Penetrance (percentage of animals/eggs on slide): less than 30%

      Comment:
      only very few cuticles on the slide among many empty eggs. parts of all tagma could be missing
      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: -1.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC014161 RA
        MIFAGGSTT SRVVRSALL MGCGALGYY FYKKITTPK 
        KSAESNSEG LESESDNEN RPSSNASEW SEILNLLEE 
        FATSGRDDN HASSLVSPE MTMDAIIEG VASESNIGA 
        EGSPTAFES SDTLPVQEE FLTPRIGRN GVLSFITPE 
        ITMDQVIGG LEPETALAQ SIAAESSDV LPFQEEFGT 
        PEIDYIGTN GDPSYLQSL LDTDGASSA DIEYLIPPH 
        FWDDIEECD ESFGYGNRF YQSTPKTSR SPSEADTVV 
        LNLLEDEII
      • >TC014161 RB
        MIFAGGSTT SSLESESDN ENRPSSNAS EWSEILNLL 
        EEFATSGRD DNHASSLVS PEMTMDAII EGVASESNI 
        GAEGSPTAF ESSDTLPVQ EEFLTPRIG RNGVLSFIT 
        PEITMDQVI GGLEPETAL AQSIAAESS DVLPFQEEF 
        GTPEIDYIG TNGDPSYLQ SLLDTDGAS SADIEYLIP 
        PHFWDDIEE CDESFGYGN RFYQSTPKT SRSPSEADT 
        VVLNLLEDE II
      CDS sequence
      • >TC014161 RA
        atgattttc gcaggagga tcaaccacc tcgagggta 
        gttcgcagt gccttgcta atgggctgt ggagctctg 
        gggtactac ttttataaa aaaattacg acaccgaaa 
        aagtctgcg gagtctaat tcagaaggt ctagaatct 
        gaatctgat aatgaaaac cggccgtcg tccaatgcg 
        tccgaatgg tctgaaata ttaaactta ctagaagaa 
        ttcgcaaca tccggccga gatgataac cacgcatct 
        agcctcgtt tcccctgaa atgaccatg gacgcgata 
        atcgaaggt gtggcatct gaatcgaat attggtgcc 
        gaagggtca cccactgcg ttcgaatct tctgatact 
        ttaccagta caagaagaa ttcttaaca ccccgcatt 
        ggtagaaac ggcgtattg agcttcatt acgcctgaa 
        ataacaatg gatcaggta ataggaggt ttagaacct 
        gaaactgca ctggcacaa tccattgcg gcggaatcg 
        tctgatgta ctaccattc caagaagaa tttggaaca 
        cccgaaata gattatatc ggcaccaat ggtgatcct 
        tcttacctt caatcgctt ctagatact gacggcgcc 
        agttctgct gatattgag tatcttata cctccacat 
        ttttgggac gatattgag gaatgcgat gaatcattc 
        ggctatggt aatagattt taccagagc actcctaaa 
        acttcaaga tcgcccagt gaggctgat acggttgtt 
        ctgaattta ctagaggat gaaattatc taa
      • >TC014161 RB
        atgattttc gcaggagga tcaaccacc tcgagtcta 
        gaatctgaa tctgataat gaaaaccgg ccgtcgtcc 
        aatgcgtcc gaatggtct gaaatatta aacttacta 
        gaagaattc gcaacatcc ggccgagat gataaccac 
        gcatctagc ctcgtttcc cctgaaatg accatggac 
        gcgataatc gaaggtgtg gcatctgaa tcgaatatt 
        ggtgccgaa gggtcaccc actgcgttc gaatcttct 
        gatacttta ccagtacaa gaagaattc ttaacaccc 
        cgcattggt agaaacggc gtattgagc ttcattacg 
        cctgaaata acaatggat caggtaata ggaggttta 
        gaacctgaa actgcactg gcacaatcc attgcggcg 
        gaatcgtct gatgtacta ccattccaa gaagaattt 
        ggaacaccc gaaatagat tatatcggc accaatggt 
        gatccttct taccttcaa tcgcttcta gatactgac 
        ggcgccagt tctgctgat attgagtat cttatacct 
        ccacatttt tgggacgat attgaggaa tgcgatgaa 
        tcattcggc tatggtaat agattttac cagagcact 
        cctaaaact tcaagatcg cccagtgag gctgatacg 
        gttgttctg aatttacta gaggatgaa attatctaa
      mRNA sequence
      • >TC014161 RA
        gttgttgaa agaataagc gagtgagga caaaatgat 
        tttcgcagg aggatcaac cacctcgag ggtagttcg 
        cagtgcctt gctaatggg ctgtggagc tctggggta 
        ctactttta taaaaaaat tacgacacc gaaaaagtc 
        tgcggagtc taattcaga aggtctaga atctgaatc 
        tgataatga aaaccggcc gtcgtccaa tgcgtccga 
        atggtctga aatattaaa cttactaga agaattcgc 
        aacatccgg ccgagatga taaccacgc atctagcct 
        cgtttcccc tgaaatgac catggacgc gataatcga 
        aggtgtggc atctgaatc gaatattgg tgccgaagg 
        gtcacccac tgcgttcga atcttctga tactttacc 
        agtacaaga agaattctt aacaccccg cattggtag 
        aaacggcgt attgagctt cattacgcc tgaaataac 
        aatggatca ggtaatagg aggtttaga acctgaaac 
        tgcactggc acaatccat tgcggcgga atcgtctga 
        tgtactacc attccaaga agaatttgg aacacccga 
        aatagatta tatcggcac caatggtga tccttctta 
        ccttcaatc gcttctaga tactgacgg cgccagttc 
        tgctgatat tgagtatct tatacctcc acatttttg 
        ggacgatat tgaggaatg cgatgaatc attcggcta 
        tggtaatag attttacca gagcactcc taaaacttc 
        aagatcgcc cagtgaggc tgatacggt tgttctgaa 
        tttactaga ggatgaaat tatctaata aacgatact 
        aatgtatct ccacgtgat acctttaaa ggtaaaata 
        ctttgaatg tactttttg tttactcgt tcaattttt 
        tatgtatca atttttatt taaagtttt tgtttacgt 
        aacgttcac atcacatgt gatactctt taatataac 
        cgctaaata tatattctt aagtcataa cttttgtaa 
        cttttgttt aagtgttcg ctgagttca tatttcaat 
        aaaaaattt gtaaaata
      • >TC014161 RB
        gttgttgaa agaataagc gagtgagga caaaatgat 
        tttcgcagg aggatcaac cacctcgag tctagaatc 
        tgaatctga taatgaaaa ccggccgtc gtccaatgc 
        gtccgaatg gtctgaaat attaaactt actagaaga 
        attcgcaac atccggccg agatgataa ccacgcatc 
        tagcctcgt ttcccctga aatgaccat ggacgcgat 
        aatcgaagg tgtggcatc tgaatcgaa tattggtgc 
        cgaagggtc acccactgc gttcgaatc ttctgatac 
        tttaccagt acaagaaga attcttaac accccgcat 
        tggtagaaa cggcgtatt gagcttcat tacgcctga 
        aataacaat ggatcaggt aataggagg tttagaacc 
        tgaaactgc actggcaca atccattgc ggcggaatc 
        gtctgatgt actaccatt ccaagaaga atttggaac 
        acccgaaat agattatat cggcaccaa tggtgatcc 
        ttcttacct tcaatcgct tctagatac tgacggcgc 
        cagttctgc tgatattga gtatcttat acctccaca 
        tttttggga cgatattga ggaatgcga tgaatcatt 
        cggctatgg taatagatt ttaccagag cactcctaa 
        aacttcaag atcgcccag tgaggctga tacggttgt 
        tctgaattt actagagga tgaaattat ctaataaac 
        gatactaat gtatctcca cgtgatacc tttaaaggt 
        aaaatactt tgaatgtac tttttgttt actcgttca 
        attttttat gtatcaatt tttatttaa agtttttgt 
        ttacgtaac gttcacatc acatgtgat actctttaa 
        tataaccgc taaatatat attcttaag tcataactt 
        ttgtaactt ttgtttaag tgttcgctg agttcatat 
        ttcaataaa aaatttgta aaata
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY