Status
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Gene information
General information
TC000642 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: 8601251..8607435
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
    TC000642
    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
    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
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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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00149

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000642 RA
      MHCKQIKLG DVWRTCNKI RAAVFRTNL NLWEYFCHL 
      DPNKNSIIS ESQFISVFT GHLQAIIGL SDQEISELA 
      DYFRIQDGR ILYTQLCEV IYDSVPDFS QNAPLVTGL 
      EWEDPLHVN RLSISEERR LNLLLTKIA CVVNMRNLL 
      LRPYFQDYE LISKNNGTV TIGHFARVL DYLKILVSP 
      DDFTLLLKK YLKDSYTVN YVAFIAAID EIVKYLDQH 
      GVMDLSGDV LSLFPGRII NAELPKLPR PEIGKQLAA 
      SIFGKQSIF HSALNEPKQ TQDLVATIK RIQRHVLEN 
      RLRVSEFFK DFDALNSGR LTVSQFHRG LDMLGISGI 
      QRLYLSLPE IEAIMIQYR DPCDPTRVC WKTFEDDID 
      QVFTTKELE KYPCLCVDA PPREIVELP RMGGKDWQK 
      VNPASRELC EEAVDKVKQ RVTKRRIML KPSFRDYDK 
      HNNGYVSRS QMRQCLLSN GILLSDEEL YALEERFNN 
      EVGFNYFWF LREVEPKSC EDRCPGAIH HEVCGEEYV 
      KKPVPRAEQ DIVLIMAKI KGKVVRERI RVMEFLRDF 
      DKCNQSVIS REDFKRGLS VCRFDLTEN EMETLMEVF 
      ASPLRRECV DYRRFSDVV EEAFTQQSL ERAPLIVPL 
      QHIPTRDGE RNFLNFDER VLLSSAMNK LSKKPEMEL 
      NLIQIFQDY DKTNCGTVS GEHFERALS LRGLLNIIT 
      RQEFDAVCK CFSFERGLR DEIDYRAFI KGLNILYNI 
      NKYKPF
    CDS sequence
    • >TC000642 RA
      atgcattgc aaacaaata aaattaggt gatgtctgg 
      cgcacttgt aataaaatc cgcgcagcg gtctttcgg 
      acaaatcta aatctttgg gagtacttc tgtcatctc 
      gacccgaac aaaaattcc ataatttct gagtcacag 
      tttatttca gttttcacc ggtcatttg caggcgatt 
      attggtctc tcggaccaa gaaatttca gaacttgcg 
      gattatttc agaattcag gatggtcgt atcctgtat 
      acgcaactg tgcgaagtt atttatgac agcgtgcct 
      gatttttca caaaatgcc cccttagtc actggtctt 
      gagtgggaa gaccctctc catgtaaac cgactgagc 
      ataagtgaa gaaagacgc ttgaatctt cttctaact 
      aaaattgca tgtgttgtg aacatgaga aatttgctg 
      ctgaggccg tatttccaa gactacgaa cttatttct 
      aaaaacaac ggaactgta acaatcggt catttcgct 
      cgagttttg gactattta aaaattcta gtctcgcca 
      gacgacttt actctctta ttgaaaaaa tacctgaag 
      gacagttac acagtaaat tatgtcgca tttattgcg 
      gcaatcgac gagattgta aaatacctg gaccagcac 
      ggcgtcatg gacctgagt ggcgacgtc ctgagccta 
      tttccggga agaataatc aacgcagaa ctgcccaaa 
      ctgccgcga cccgaaatc ggcaaacaa ctagctgcg 
      agcattttc ggcaaacaa agcatcttt cattccgcg 
      ttaaacgaa ccgaaacaa acgcaagac ttggtcgct 
      acaattaaa cgaattcaa agacacgtt ttggaaaat 
      agattacgg gtgtcggaa tttttcaaa gactttgat 
      gcgctaaat agtggacgc ttgaccgtg tcgcagttc 
      caccgaggg ctggacatg ctggggatc agtggtatc 
      cagagactt tacttgtct ttgcctgaa attgaggcc 
      ataatgata caatatcgc gacccctgt gaccccact 
      cgagtgtgt tggaagacg tttgaagac gatattgac 
      caggttttc actaccaaa gagctggag aagtatccg 
      tgtttgtgc gtggatgcg cccccgcgt gaaattgtc 
      gagttgccc agaatgggg ggcaaagac tggcaaaaa 
      gtaaatccc gcctccaga gaattgtgc gaagaagcg 
      gttgataaa gtcaagcaa agagttacg aaaagacga 
      atcatgtta aaaccatcc tttagggac tatgacaag 
      cacaacaat ggttacgtt tcgcgttcg caaatgcgc 
      cagtgttta ctgtctaat ggtattctc ttgtccgat 
      gaagagttg tatgctttg gaagagcgt tttaataac 
      gaggttggt ttcaactac ttctggttt ctgagggag 
      gttgagccg aagagttgc gaggaccgc tgtcctggt 
      gccatccac cacgaggtc tgtggcgaa gaatacgtg 
      aaaaagccc gtgcctcgg gccgagcaa gacattgtc 
      ctgattatg gccaaaatc aagggcaag gttgtgcgt 
      gagcgaatc cgagtgatg gagtttttg cgtgatttt 
      gacaagtgc aaccaaagt gttatttct cgtgaagat 
      ttcaagcgg ggtttgtcg gtttgtcgc ttcgatttg 
      accgaaaac gagatggaa acgctgatg gaagttttt 
      gcctcgcct ttgaggcgc gaatgtgtg gactatcgc 
      cggttttcg gacgtggtt gaggaggct ttcactcag 
      caaagcctg gagcgtgct cctttaatc gtccccctg 
      cagcatatc ccgaccagg gacggcgaa cggaatttc 
      ctcaatttc gacgaaaga gtgctgctg tccagcgca 
      atgaataag ctatcgaaa aagcccgaa atggagctc 
      aatttgatt caaatcttc caggattat gacaagacc 
      aactgtggg acggtttcg ggcgagcac ttcgaaagg 
      gcgctgtcg ctgcggggc cttcttaac atcatcacg 
      agacaggaa ttcgacgct gtttgcaaa tgcttcagt 
      ttcgagagg gggctgcgg gacgagatc gactaccgg 
      gcgttcatt aaggggctc aacatcctc tacaatata 
      aataaatac aaacctttc tga
    mRNA sequence
    • >TC000642 RA
      tagtgtgca gcaaaaatg cattgcaaa caaataaaa 
      ttaggtgat gtctggcgc acttgtaat aaaatccgc 
      gcagcggtc tttcggaca aatctaaat ctttgggag 
      tacttctgt catctcgac ccgaacaaa aattccata 
      atttctgag tcacagttt atttcagtt ttcaccggt 
      catttgcag gcgattatt ggtctctcg gaccaagaa 
      atttcagaa cttgcggat tatttcaga attcaggat 
      ggtcgtatc ctgtatacg caactgtgc gaagttatt 
      tatgacagc gtgcctgat ttttcacaa aatgccccc 
      ttagtcact ggtcttgag tgggaagac cctctccat 
      gtaaaccga ctgagcata agtgaagaa agacgcttg 
      aatcttctt ctaactaaa attgcatgt gttgtgaac 
      atgagaaat ttgctgctg aggccgtat ttccaagac 
      tacgaactt atttctaaa aacaacgga actgtaaca 
      atcggtcat ttcgctcga gttttggac tatttaaaa 
      attctagtc tcgccagac gactttact ctcttattg 
      aaaaaatac ctgaaggac agttacaca gtaaattat 
      gtcgcattt attgcggca atcgacgag attgtaaaa 
      tacctggac cagcacggc gtcatggac ctgagtggc 
      gacgtcctg agcctattt ccgggaaga ataatcaac 
      gcagaactg cccaaactg ccgcgaccc gaaatcggc 
      aaacaacta gctgcgagc attttcggc aaacaaagc 
      atctttcat tccgcgtta aacgaaccg aaacaaacg 
      caagacttg gtcgctaca attaaacga attcaaaga 
      cacgttttg gaaaataga ttacgggtg tcggaattt 
      ttcaaagac tttgatgcg ctaaatagt ggacgcttg 
      accgtgtcg cagttccac cgagggctg gacatgctg 
      gggatcagt ggtatccag agactttac ttgtctttg 
      cctgaaatt gaggccata atgatacaa tatcgcgac 
      ccctgtgac cccactcga gtgtgttgg aagacgttt 
      gaagacgat attgaccag gttttcact accaaagag 
      ctggagaag tatccgtgt ttgtgcgtg gatgcgccc 
      ccgcgtgaa attgtcgag ttgcccaga atggggggc 
      aaagactgg caaaaagta aatcccgcc tccagagaa 
      ttgtgcgaa gaagcggtt gataaagtc aagcaaaga 
      gttacgaaa agacgaatc atgttaaaa ccatccttt 
      agggactat gacaagcac aacaatggt tacgtttcg 
      cgttcgcaa atgcgccag tgtttactg tctaatggt 
      attctcttg tccgatgaa gagttgtat gctttggaa 
      gagcgtttt aataacgag gttggtttc aactacttc 
      tggtttctg agggaggtt gagccgaag agttgcgag 
      gaccgctgt cctggtgcc atccaccac gaggtctgt 
      ggcgaagaa tacgtgaaa aagcccgtg cctcgggcc 
      gagcaagac attgtcctg attatggcc aaaatcaag 
      ggcaaggtt gtgcgtgag cgaatccga gtgatggag 
      tttttgcgt gattttgac aagtgcaac caaagtgtt 
      atttctcgt gaagatttc aagcggggt ttgtcggtt 
      tgtcgcttc gatttgacc gaaaacgag atggaaacg 
      ctgatggaa gtttttgcc tcgcctttg aggcgcgaa 
      tgtgtggac tatcgccgg ttttcggac gtggttgag 
      gaggctttc actcagcaa agcctggag cgtgctcct 
      ttaatcgtc cccctgcag catatcccg accagggac 
      ggcgaacgg aatttcctc aatttcgac gaaagagtg 
      ctgctgtcc agcgcaatg aataagcta tcgaaaaag 
      cccgaaatg gagctcaat ttgattcaa atcttccag 
      gattatgac aagaccaac tgtgggacg gtttcgggc 
      gagcacttc gaaagggcg ctgtcgctg cggggcctt 
      cttaacatc atcacgaga caggaattc gacgctgtt 
      tgcaaatgc ttcagtttc gagaggggg ctgcgggac 
      gagatcgac taccgggcg ttcattaag gggctcaac 
      atcctctac aatataaat aaatacaaa cctttctga 
      aaatatcgc gggcaaata tattgatat tattcgatt 
      ttgtggctg attattccg tttggttgt tttccgatg 
      gcgtcattg taagtgatt tgtcccggg agaggtgtg 
      caagccgtt cgttgggtc ttgatgcaa taaatgaac 
      caaattaga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY