Status
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Gene information
General information
TC004992 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_007417.3: 557126..574218
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
    TC004992
    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 *
    {{ 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
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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_00794

    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


    adult nutritional state - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection


    Comment: at this timepoint still living

    eclosion not fulfilled (died as prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (19 dpi)
    Days post injection


    Pupal morphology
    antenna shortened - Number of animals showing the phenotype: 9

    wings shortened - Number of animals showing the phenotype: 9
    oblique dorsal thoracic muscles fragmented - Number of animals showing the phenotype: 8

    female genital lobes decreased - Number of animals showing the phenotype: 9
    Adult morphology
    ommatidia shape irregular - Number of animals showing the phenotype: 6

    Comment: black border around the eye is missing. surface of the eye appears plain. the GFP expression of the ommatidia points to a reduced number of ommatidia as well as a malformation of the ommatidia

    antenna shortened - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004992 RA
      MATKRNLPP PNSSGKRFK NDKIFRPPV GDLNPTDDA 
      LIFQELELD HYISAPYPG MPGAQTGTV PVIRMFGIT 
      KVGNSVCCH IHGFSPYFY INLPNDFTQ ADLSRFKEK 
      LNEAVVSDM RSNRDNITE AVLMVELVR GKSLVEYQG 
      EDDNNFAKI TLALPKFIA ASKRLLSTT VVYQPLAHH 
      TFHFFEANV DIETRFMVD TNILGCCWI ELPAGKWFK 
      RPENKFPVT SRCQIEVDI SWTDFISHS PEGEWSPVA 
      RFRIHSFDI ECAGRKGIF PEPNVDPII QIANVIKLH 
      GDEDVVTRN IFTLNSCAP IGHAEVRSF DTEAEMLEE 
      WAEFVRETD PDIFTGYNI NNFDFPYLI ERANHLKLK 
      RFDYLGRIL DIRSSIKET VTQTKIGKR TFKSINFEG 
      RVAYDMLMV IKRDFKLRS YTLNSVSQE ILGEQKEDV 
      HYSVITDLQ NGDEQTRRR LAVYCLKDA DLPVRILST 
      VRSFTNDVE MARVTGVPI TSLLTKGEQ VKVVAQLLK 
      HARAAGYFM PTHQGAPSS EQYEGATVI EPRRGYYTD 
      PIATLDFSS LYPSIMIAH NLCYTTLIK PSIKEKLCL 
      SDEQVTTTP ANCMFVKSS VRPGLLPHI LQHLLAARK 
      KTKAELKEA TDPVVRAVL DGRQLAYKI SANSVYGFT 
      GAQVGKLPC LEISSSVTA YGRTMIEQT KQEVEQHYR 
      IENGYESDA MVIYGDTDS VMVNFRVKS LERSMELGR 
      EAADLISAK FIKPIKLEF EKVYWPYLL INKKRYAGL 
      YFTKPDKYD KMDCKGIET VRRDNCTLV VDVINSCLR 
      KLLIDKDPD GAVNYAKKV ISDLLQNNV DISQLVITK 
      ELTKNDYAA KQAHVELSK KMTKRDPGN APKLGDRIP 
      YVIIAGTKN SKAFEKAED PIYVLENNI PIDSQYYLQ 
      NQLSKPLIR IFQPILGDS AESILLRGE HTRTKTMVT 
      SRVGALSAF TKKKETCLG CRSVLPAGY EAEAVCSHC 
      KPKEATLYQ QELGHHRML ENRFSELFT ECQRCQGSL 
      HEEILCTSR DCPIFYIRK KVQMELDAS KGKISRFGD 
      PIMEEW
    CDS sequence
    • >TC004992 RA
      atggcaaca aaacgcaat cttccgcct ccgaattca 
      tcagggaag aggttcaag aacgacaaa atttttcgc 
      cccccagtt ggcgattta aaccccact gatgatgca 
      ctaattttt caagaatta gagttggat cattacatt 
      tcagcccct tatcctgga atgccaggg gctcaaact 
      ggtactgtt cctgtgatt cgaatgttt ggtattaca 
      aaagtgggc aatagtgtg tgttgtcat attcatggt 
      ttttctcca tacttttac attaatctg ccgaatgat 
      tttacacaa gcggatttg tcccgtttc aaggaaaag 
      ttaaatgaa gctgtggta agcgatatg cgctcaaac 
      cgtgacaac ataaccgaa gcagtttta atggtggaa 
      ctggttaga ggaaaatct ctcgtagag tatcaagga 
      gaggacgac aacaacttt gctaaaata accctagcc 
      ttaccgaaa tttattgct gcatctaaa cgtctccta 
      agcactaca gtcgtctat caaccgctt gcccatcac 
      acgtttcat ttctttgaa gcaaatgtg gatattgaa 
      acgcgtttt atggttgat acgaatatt ttgggttgt 
      tgctggatt gagttgcca gcaggcaaa tggttcaaa 
      cgaccagaa aataagttc cctgtaact tcacgttgc 
      caaatagaa gtggacatc tcatggact gactttatt 
      tcacattca ccagaaggt gaatggtca ccagtggct 
      cgatttcgt attcatagt ttcgatatt gaatgtgct 
      ggaagaaaa gggattttt ccggagccg aacgttgat 
      cccattatt caaattgcc aacgtgatt aagttacat 
      ggtgacgag gatgtggtt actcgaaat attttcact 
      ttaaacagt tgcgcaccc ataggacat gctgaggtt 
      cgtagtttc gacaccgaa gcggaaatg ttggaggaa 
      tgggcggaa tttgtaaga gaaacagat ccagacata 
      ttcaccggt tacaacata aataacttt gactttccg 
      tatctgatt gaacgtgca aatcacttg aaattaaag 
      cgtttcgat tatttggga cgtattctt gacattagg 
      tctagcata aaagaaaca gtcacgcaa acaaaaatc 
      ggtaaaaga acattcaag tcgattaat tttgaagga 
      cgcgtagca tatgatatg ttaatggta attaagcgc 
      gattttaag cttcgatca tatacgtta aacagcgtt 
      tctcaagaa atattagga gagcagaag gaagatgta 
      cattatagt gttattacg gatttgcaa aacggcgac 
      gaacagaca agaagaaga cttgcagtg tactgttta 
      aaagatgcg gatttacca gttagaata ctgagtaca 
      gttcgaagt tttaccaat gatgtcgaa atggcaaga 
      gtcaccggt gtacctata actagcttg ttgacaaaa 
      ggggagcaa gttaaagtt gtggcccaa ttattgaaa 
      catgctcga gctgctgga tatttcatg ccaacacat 
      caaggagca ccttcttct gaacagtat gaaggagct 
      acagttata gaaccgaga cgaggttac tacactgat 
      ccaatagcc actcttgat ttcagttct ctatatccc 
      agtattatg atagcacat aatttgtgt tatacgact 
      ttgattaaa cccagtatc aaagaaaag ctctgttta 
      agtgacgag caagttaca accactcca gcaaattgt 
      atgtttgtg aagtcatcg gttagaccc ggtttgtta 
      ccacacatc ttgcaacat cttcttgca gcgcgtaaa 
      aaaaccaaa gctgagtta aaggaagca acagatcct 
      gttgtaaga gccgttttg gacggtcgg caattggct 
      tacaaaatt tcagctaac tcggtttat ggttttacg 
      ggagctcaa gtcggaaaa ttgccttgt ttggaaatt 
      tcaagtagt gtaactgct tatggtcga acaatgatt 
      gaacagacg aaacaagaa gttgaacaa cattatcgc 
      attgaaaat ggttacgaa tccgatgcg atggttatt 
      tatggggac actgactcg gttatggtt aacttccga 
      gtgaagtct ttagaaaga agtatggag ctggggagg 
      gaagcagct gatttgata agtgccaag tttataaag 
      cccatcaag ttagaattt gaaaaggtt tattggcca 
      tacttattg attaataaa aagcgttat gctggattg 
      tattttaca aaaccggat aaatacgac aaaatggat 
      tgcaaaggt attgaaacc gtacgaagg gataattgt 
      acattggtt gttgatgta attaattcg tgtctgcga 
      aaacttctg attgataaa gatccagat ggtgctgtt 
      aattacgcc aaaaaagtt atttcggat ttgctccaa 
      aacaatgta gatatttct caattggtg attacgaaa 
      gaacttaca aaaaatgat tacgctgcc aaacaggca 
      catgttgaa ttatcgaaa aaaatgact aaacgagat 
      cctggaaat gctcctaaa ttgggagat cgcatacct 
      tatgttata attgcagga acgaagaat tccaaagct 
      tttgaaaaa gcagaggat cctatctac gttttggag 
      aacaacatt ccaattgat tcgcagtat tacttgcaa 
      aatcaattg tctaaacct ttgattcgc atttttcaa 
      ccgattttg ggagacagt gctgagtca attttgcta 
      cggggtgaa cacacacgg actaaaaca atggtcact 
      tctcgagtg ggtgcttta tcagcattt actaaaaag 
      aaagagact tgtctgggg tgtcgttcg gttttacca 
      gctggttat gaagcagaa gctgtttgt agtcactgt 
      aaaccaaag gaggcaacg ttgtatcaa caggaattg 
      ggacatcac agaatgtta gaaaatcgt ttttcggaa 
      ctttttacc gagtgccag agatgccag ggatctttg 
      catgaggag attttgtgc acaagtcgt gactgtcca 
      attttttat atacggaag aaggttcaa atggaattg 
      gatgcaagc aaagggaaa atttcgaga tttggtgat 
      cctattatg gaggaatgg tga
    mRNA sequence
    • >TC004992 RA
      ggaagaaac tgaaatatc ttgtttgga gtccgtttg 
      tttacagca aaatggcaa caaaacgca atcttccgc 
      ctccgaatt catcaggga agaggttca agaacgaca 
      aaatttttc gccccccag ttggcgatt taaacccca 
      ctgatgatg cactaattt ttcaagaat tagagttgg 
      atcattaca tttcagccc cttatcctg gaatgccag 
      gggctcaaa ctggtactg ttcctgtga ttcgaatgt 
      ttggtatta caaaagtgg gcaatagtg tgtgttgtc 
      atattcatg gtttttctc catactttt acattaatc 
      tgccgaatg attttacac aagcggatt tgtcccgtt 
      tcaaggaaa agttaaatg aagctgtgg taagcgata 
      tgcgctcaa accgtgaca acataaccg aagcagttt 
      taatggtgg aactggtta gaggaaaat ctctcgtag 
      agtatcaag gagaggacg acaacaact ttgctaaaa 
      taaccctag ccttaccga aatttattg ctgcatcta 
      aacgtctcc taagcacta cagtcgtct atcaaccgc 
      ttgcccatc acacgtttc atttctttg aagcaaatg 
      tggatattg aaacgcgtt ttatggttg atacgaata 
      ttttgggtt gttgctgga ttgagttgc cagcaggca 
      aatggttca aacgaccag aaaataagt tccctgtaa 
      cttcacgtt gccaaatag aagtggaca tctcatgga 
      ctgacttta tttcacatt caccagaag gtgaatggt 
      caccagtgg ctcgatttc gtattcata gtttcgata 
      ttgaatgtg ctggaagaa aagggattt ttccggagc 
      cgaacgttg atcccatta ttcaaattg ccaacgtga 
      ttaagttac atggtgacg aggatgtgg ttactcgaa 
      atattttca ctttaaaca gttgcgcac ccataggac 
      atgctgagg ttcgtagtt tcgacaccg aagcggaaa 
      tgttggagg aatgggcgg aatttgtaa gagaaacag 
      atccagaca tattcaccg gttacaaca taaataact 
      ttgactttc cgtatctga ttgaacgtg caaatcact 
      tgaaattaa agcgtttcg attatttgg gacgtattc 
      ttgacatta ggtctagca taaaagaaa cagtcacgc 
      aaacaaaaa tcggtaaaa gaacattca agtcgatta 
      attttgaag gacgcgtag catatgata tgttaatgg 
      taattaagc gcgatttta agcttcgat catatacgt 
      taaacagcg tttctcaag aaatattag gagagcaga 
      aggaagatg tacattata gtgttatta cggatttgc 
      aaaacggcg acgaacaga caagaagaa gacttgcag 
      tgtactgtt taaaagatg cggatttac cagttagaa 
      tactgagta cagttcgaa gttttacca atgatgtcg 
      aaatggcaa gagtcaccg gtgtaccta taactagct 
      tgttgacaa aaggggagc aagttaaag ttgtggccc 
      aattattga aacatgctc gagctgctg gatatttca 
      tgccaacac atcaaggag caccttctt ctgaacagt 
      atgaaggag ctacagtta tagaaccga gacgaggtt 
      actacactg atccaatag ccactcttg atttcagtt 
      ctctatatc ccagtatta tgatagcac ataatttgt 
      gttatacga ctttgatta aacccagta tcaaagaaa 
      agctctgtt taagtgacg agcaagtta caaccactc 
      cagcaaatt gtatgtttg tgaagtcat cggttagac 
      ccggtttgt taccacaca tcttgcaac atcttcttg 
      cagcgcgta aaaaaacca aagctgagt taaaggaag 
      caacagatc ctgttgtaa gagccgttt tggacggtc 
      ggcaattgg cttacaaaa tttcagcta actcggttt 
      atggtttta cgggagctc aagtcggaa aattgcctt 
      gtttggaaa tttcaagta gtgtaactg cttatggtc 
      gaacaatga ttgaacaga cgaaacaag aagttgaac 
      aacattatc gcattgaaa atggttacg aatccgatg 
      cgatggtta tttatgggg acactgact cggttatgg 
      ttaacttcc gagtgaagt ctttagaaa gaagtatgg 
      agctgggga gggaagcag ctgatttga taagtgcca 
      agtttataa agcccatca agttagaat ttgaaaagg 
      tttattggc catacttat tgattaata aaaagcgtt 
      atgctggat tgtatttta caaaaccgg ataaatacg 
      acaaaatgg attgcaaag gtattgaaa ccgtacgaa 
      gggataatt gtacattgg ttgttgatg taattaatt 
      cgtgtctgc gaaaacttc tgattgata aagatccag 
      atggtgctg ttaattacg ccaaaaaag ttatttcgg 
      atttgctcc aaaacaatg tagatattt ctcaattgg 
      tgattacga aagaactta caaaaaatg attacgctg 
      ccaaacagg cacatgttg aattatcga aaaaaatga 
      ctaaacgag atcctggaa atgctccta aattgggag 
      atcgcatac cttatgtta taattgcag gaacgaaga 
      attccaaag cttttgaaa aagcagagg atcctatct 
      acgttttgg agaacaaca ttccaattg attcgcagt 
      attacttgc aaaatcaat tgtctaaac ctttgattc 
      gcatttttc aaccgattt tgggagaca gtgctgagt 
      caattttgc tacggggtg aacacacac ggactaaaa 
      caatggtca cttctcgag tgggtgctt tatcagcat 
      ttactaaaa agaaagaga cttgtctgg ggtgtcgtt 
      cggttttac cagctggtt atgaagcag aagctgttt 
      gtagtcact gtaaaccaa aggaggcaa cgttgtatc 
      aacaggaat tgggacatc acagaatgt tagaaaatc 
      gtttttcgg aacttttta ccgagtgcc agagatgcc 
      agggatctt tgcatgagg agattttgt gcacaagtc 
      gtgactgtc caatttttt atatacgga agaaggttc 
      aaatggaat tggatgcaa gcaaaggga aaatttcga 
      gatttggtg atcctatta tggaggaat ggtgatgtt 
      ttttttaca tgattttgt attgttagg ttgaacgcc 
      ttttacttt aaatttatg cttttataa taaaaaagt 
      ttcaattat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY