Status
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Gene information
General information
TC013643 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: 7111630..7125838
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
    TC013643
    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
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    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_08259

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (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
    • >TC013643 RA
      MEGDGCNST IDTNLPHPT KPELVINCR NGWFREFWS 
      QHNKCSFDN TDRKCTGEE AISDYEQEG LVPFVVDAV 
      YAAAHAIHN IIVDECGTD PFYLCNKLK PAPLGIQLL 
      KYLRNVSFI GRQKTEVRF NQDGDAYGS YNIYQYQRH 
      EDGKYDYSQ IGSWKEKLI LNLSRIQWK ESDEMPKSI 
      CSETCPSGH IRNYQDQCC WVCVSCRED AYVFNDTCK 
      SCLPGYAPN KDKTDCDKL KALVIEWMS PWALVPLVF 
      SSFGILCTI FTTCVFIRY NRTPVIMAS GRELCYVLL 
      SGVLCCYSM SFVILAKPS VETCAVMRV GLGLCLSVC 
      YSAIFTKTN RISRIFNRG VKSIKRPVY TSPISQVAI 
      ALGIVSIQL VGAIVWLVI ERPDIREIY PYPLTAVLT 
      CRVSTFSLI MSLVYNMIL IILCTWYAF KTRKIPENF 
      NEAKYIGFT MYSTCIVWL AFLPIYFGT NNDYKIQIV 
      SMCMCLNIS ATVALGCLF TPKVYLVLF QPYKNVRQG 
      NGNQGGNPD RPAYSMRFA GPRSQTIQS MTSNSRSSP 
      RLGQKHANG DPNALPSPS IEESSLS
    CDS sequence
    • >TC013643 RA
      atggaaggc gacgggtgc aactccacc atagacacc 
      aacttgcct catcccaca aaaccggag ctagttatc 
      aactgtcgc aacggttgg ttccgggag ttctggagt 
      cagcacaac aagtgcagc ttcgataac accgaccgg 
      aaatgcacg ggggaagaa gctatttca gactacgaa 
      caagagggt ctagtgcca ttcgtggtg gatgccgtg 
      tacgccgcc gctcacgcc attcataat atcatcgtc 
      gacgaatgt ggaactgat cctttttat ttgtgcaac 
      aaactcaaa cctgcccct ttaggaata caactttta 
      aagtacctg agaaatgtc tcgttcata ggccggcaa 
      aaaactgaa gttaggttc aaccaggat ggcgatgct 
      tacggcagc tacaacatc taccagtac caaagacat 
      gaggatgga aaatacgac tacagtcaa atcggttcg 
      tggaaagag aaactgatc ttgaactta agccggatc 
      caatggaag gaaagcgat gaaatgccc aagtcaatt 
      tgcagcgaa acatgtcca tcaggccac atacggaac 
      tatcaagat cagtgctgc tgggtgtgc gtttcctgc 
      cgagaggac gcttacgtc ttcaacgac acttgcaaa 
      tcctgcctt ccaggctac gcccccaac aaggacaaa 
      acggactgc gacaagctg aaagcgctg gtgatagaa 
      tggatgagt ccgtgggct ttggtccct ctcgtgttt 
      tcctccttc ggcatcctc tgcaccatc ttcaccacc 
      tgcgtcttc atccgctac aaccgcacc cctgtgatc 
      atggcctcg ggcagggag ctctgctac gtcctgctc 
      agcggcgtc ctgtgctgc tactccatg tccttcgtt 
      atcctcgca aagccctcg gtggagacc tgtgccgtg 
      atgcgcgtg gggctcggc ctgtgcctc agcgtctgc 
      tacagcgcg attttcacc aaaaccaat cgcatctcg 
      aggatattt aaccgaggg gtgaaaagc atcaaaaga 
      cctgtttat acttcaccc atctcgcaa gtcgccatc 
      gcactcgga atcgtatca atacaactg gttggagcg 
      atcgtttgg cttgtgatc gaacggccg gatattcgg 
      gaaatatac ccgtacccg ctaacagcc gtcttgacc 
      tgcagagtc tcaactttc tcgctcatc atgtctttg 
      gtttacaat atgatactc attatcctc tgcacctgg 
      tacgctttc aaaaccaga aaaatacca gagaacttt 
      aatgaagcc aaatatatt ggatttacg atgtactcc 
      acttgcatt gtctggcta gcgtttctt ccaatttac 
      ttcggaaca aataacgac tacaagatc cagatagtc 
      agtatgtgc atgtgtctc aacatcagc gcaactgtt 
      gctttgggt tgcttattt acgcccaaa gtttacctc 
      gtcctattc caaccctac aagaatgtg cgtcaaggc 
      aacggaaac cagggtgga aatcccgac cggccggct 
      tacagtatg cgcttcgcg ggtcctcgc tctcaaaca 
      atccagtca atgacgagt aactccaga tcttcgcca 
      aggttgggc caaaagcat gccaacgga gacccgaac 
      gctcttccg agccccagc atcgaggag agctcttta 
      agttaa
    mRNA sequence
    • >TC013643 RA
      tcactgcgg ccacggatg gaaggcgac gggtgcaac 
      tccaccata gacaccaac ttgcctcat cccacaaaa 
      ccggagcta gttatcaac tgtcgcaac ggttggttc 
      cgggagttc tggagtcag cacaacaag tgcagcttc 
      gataacacc gaccggaaa tgcacgggg gaagaagct 
      atttcagac tacgaacaa gagggtcta gtgccattc 
      gtggtggat gccgtgtac gccgccgct cacgccatt 
      cataatatc atcgtcgac gaatgtgga actgatcct 
      ttttatttg tgcaacaaa ctcaaacct gccccttta 
      ggaatacaa cttttaaag tacctgaga aatgtctcg 
      ttcataggc cggcaaaaa actgaagtt aggttcaac 
      caggatggc gatgcttac ggcagctac aacatctac 
      cagtaccaa agacatgag gatggaaaa tacgactac 
      agtcaaatc ggttcgtgg aaagagaaa ctgatcttg 
      aacttaagc cggatccaa tggaaggaa agcgatgaa 
      atgcccaag tcaatttgc agcgaaaca tgtccatca 
      ggccacata cggaactat caagatcag tgctgctgg 
      gtgtgcgtt tcctgccga gaggacgct tacgtcttc 
      aacgacact tgcaaatcc tgccttcca ggctacgcc 
      cccaacaag gacaaaacg gactgcgac aagctgaaa 
      gcgctggtg atagaatgg atgagtccg tgggctttg 
      gtccctctc gtgttttcc tccttcggc atcctctgc 
      accatcttc accacctgc gtcttcatc cgctacaac 
      cgcacccct gtgatcatg gcctcgggc agggagctc 
      tgctacgtc ctgctcagc ggcgtcctg tgctgctac 
      tccatgtcc ttcgttatc ctcgcaaag ccctcggtg 
      gagacctgt gccgtgatg cgcgtgggg ctcggcctg 
      tgcctcagc gtctgctac agcgcgatt ttcaccaaa 
      accaatcgc atctcgagg atatttaac cgaggggtg 
      aaaagcatc aaaagacct gtttatact tcacccatc 
      tcgcaagtc gccatcgca ctcggaatc gtatcaata 
      caactggtt ggagcgatc gtttggctt gtgatcgaa 
      cggccggat attcgggaa atatacccg tacccgcta 
      acagccgtc ttgacctgc agagtctca actttctcg 
      ctcatcatg tctttggtt tacaatatg atactcatt 
      atcctctgc acctggtac gctttcaaa accagaaaa 
      ataccagag aactttaat gaagccaaa tatattgga 
      tttacgatg tactccact tgcattgtc tggctagcg 
      tttcttcca atttacttc ggaacaaat aacgactac 
      aagatccag atagtcagt atgtgcatg tgtctcaac 
      atcagcgca actgttgct ttgggttgc ttatttacg 
      cccaaagtt tacctcgtc ctattccaa ccctacaag 
      aatgtgcgt caaggcaac ggaaaccag ggtggaaat 
      cccgaccgg ccggcttac agtatgcgc ttcgcgggt 
      cctcgctct caaacaatc cagtcaatg acgagtaac 
      tccagatct tcgccaagg ttgggccaa aagcatgcc 
      aacggagac ccgaacgct cttccgagc cccagcatc 
      gaggagagc tctttaagt taaatcagt gtcttcctt 
      tcagaatca gtcaatacg caactcaaa tgtcaaaag 
      caaaccaaa attagtatt tacaaatat atgtcctga 
      aattcgtgt taaaatttt cgattttct tgttgatat 
      tcatgtcta aatataaat aagttaatt gatgttgag 
      cccttttac acgtattgc agaaatatt gcagtaaaa 
      actaatttt gcatctctg tccttcaac ttctacact 
      tttgcaatc ttgatgtaa aaactagag taatggcat 
      atttaggta gatcagtat taaatattg tgattcatc 
      gtatattat gctttagtc ggattatta ttcgatttt 
      atactattt gctcacgtt ttatttcat ctgtgccta 
      atatgtgtg gtgtaaagt agacttaag ctgattttt 
      atctgtaaa tataagaca aggagctga ttgggtaag 
      tcgttagat agtaagtat gtaaaattt gtaaatagg 
      tcgtttttt gttctctcc attaaaaac gagacgaga 
      aggtgctat aacgagacg cgatttatc actgatgca 
      tttagtttg taaatactg aatttgtaa tttttttaa 
      gtgatgtgt caaagcata aaggaacga atttattaa 
      tgtaaataa aaaccgttc acatcggtt gatttccca 
      ctctcgaca agattcctg aatcaattg tttagctca 
      tcgttagga tagttctat ttttctaaa tatatactg 
      atcatttcg aaaatctct atgttcctt aacgttgtt 
      aagtttcaa agactcgta caaattgtt tttaaatgt 
      tatttattt atgtaggct agataaatc atatcgaaa 
      tacatagaa taggagaca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY