Status
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Gene information
General information
TC004290 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_015451971.1: 51015..56051
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
    TC004290
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03719

    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: 20.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004290 RA
      MQVATLFRE SSTLLGATM EAGGGGAAA ATGAPDSGV 
      SALPPGPIA TYDYNNHPV TFSNKYKLN MKLEPHDDG 
      YETSADMLL SNTASVNHE VKCEKLEDP YSFIDDDPI 
      PMLPAAAQG PPHLVNPMP PLNNQLIPT GPKKRGRKK 
      KIKPEEPGY NQDMNGGIP RPIKERKKH DRFNGMPEE 
      EVSKRTLPD HLTENLDII IIGINPGLF AAYKGHHYA 
      GPGNHFWKC LYLSGLTQQ QVSADEDYK LLQVGIGFT 
      NMVQRATKG SADLTRKEI KEGSQILLE KLRKFRPKI 
      AVFNGKLIY EVFSGKKDF KFGRQPDLV DGTNTYMWV 
      MPSSSARCA QLPRAADKV PFYAALKKF RDYLNGVIT 
      EIDESEMVF SEPRVKSCY EAEPKPDPY STELTDISN 
      AVIKKEDGT IVPCKKKRG RPKKIKVEG EEPPPKPVV 
      RKSPPTNCD FPKKKRGRP KKVKVENMD IPPPENNTS 
      TNMSQCYSH PSPIQSPNF YQMGPALTP PNSSSNLYA 
      PQPQGYAPS PRPHSQPFT HSDLSSEIS AAISSEQLG 
      SPASPSLGP PDFEPPTSM AEEAECRLS SPAPSTNSE 
      QTHYPYHYM DSSHEAQYA SPRQPQDLA SKSLSGLES 
      LVDQIPSIT EGETPLSEA PDQYSGQFN NYTSRASPV 
      PYNYPPSGG YPLYPTPTW SGYEPMPLA YPQLPYAQG 
      YGPGLHMPS PNYPYYSYP QPAPAHPPG YPPYLGGF
    CDS sequence
    • >TC004290 RA
      atgcaggtg gcaactctt ttccgcgag tcctccact 
      ttgctggga gccaccatg gaggcgggc ggaggcggc 
      gccgccgcc gccaccgga gccccggac tccggagtc 
      tccgcatta ccacccgga cccatcgcc acctacgac 
      tacaacaac cacccggtg accttctcc aacaagtac 
      aagctaaac atgaaactt gaaccccat gatgatggt 
      tatgaaact agtgctgat atgttgctt tcaaacact 
      gccagtgtt aatcatgaa gtgaaatgt gaaaaactc 
      gaagatcct tacagtttt attgacgat gatcctatt 
      ccgatgctt cctgctgct gcacaaggg cctcctcat 
      cttgtcaat cctatgccc ccgctcaac aaccaactc 
      ataccaaca ggacccaag aaaaggggg cggaaaaag 
      aagattaaa ccagaagaa ccgggctat aatcaagat 
      atgaatggt gggattcct cggcctata aaggagcga 
      aaaaagcac gatcgattt aacgggatg cctgaagaa 
      gaggtgtcc aaacgaaca ttgccggat caccttacc 
      gaaaattta gatataatc attattggg ataaacccg 
      ggcttattt gcggcctat aagggtcat cactatgcc 
      ggtcctgga aaccatttt tggaaatgt ttatattta 
      tcaggatta acacaacag caagtatca gctgacgaa 
      gattataaa ttacttcaa gtaggcatt ggctttaca 
      aatatggta cagcgtgca accaagggt agcgctgat 
      ttaactcgt aaggaaatt aaagagggt agtcaaata 
      ttattagaa aaattacga aaatttcga cctaagatt 
      gccgttttt aacggcaag ttgatctat gaagtcttc 
      tccggaaaa aaggatttc aagttcgga cggcaaccc 
      gacctcgtc gacggcaca aacacgtat atgtgggtg 
      atgccgtcg tccagcgct cgatgtgcg caacttcct 
      cgagcggcg gataaagta ccgttttac gctgctttg 
      aaaaagttc cgcgattat ttgaacggg gtaataacc 
      gaaatcgac gaatcggaa atggtgttt tccgagcct 
      cgtgtgaaa tcctgctac gaagccgaa ccaaaacct 
      gatccatat tccaccgaa ctcactgac ataagtaat 
      gctgtgatt aaaaaagaa gacggtact attgtaccg 
      tgcaaaaag aagcggggt cgacctaaa aaaatcaaa 
      gtcgaaggc gaagagccg cccccgaaa ccggtggtt 
      cgcaaatcg ccaccgacc aactgtgat ttccccaaa 
      aagaaaaga ggccggcct aaaaaagtc aaagtagag 
      aacatggat ataccccca cccgagaat aatacatcg 
      accaacatg tctcagtgt tactcgcat ccgtcaccg 
      atccaatcc ccgaatttc tatcaaatg gggcccgcc 
      ctcacaccc ccgaacagt tcgagtaat ttgtacgcc 
      ccccaacca caaggctac gcccctagt ccccgcccc 
      cactcccag cccttcacc cactccgac ttaagctcg 
      gaaatcagc gctgcgatt agttcggaa cagttggga 
      tcgccggcc tcccctagt ctgggcccc cctgatttc 
      gagccccct accagtatg gccgaggag gcggagtgt 
      cggctcagt agccccgcc ccgtcgacc aatagcgag 
      cagacccac tatccctac cactacatg gactcctcc 
      cacgaagcg caatacgcg tcaccccga cagccccag 
      gatctggcc tcgaagagt ctctcgggt ttggagtct 
      ctcgtcgac caaataccg agcataacc gaaggggag 
      acgcccctc agcgaggct ccagaccaa tattccggc 
      cagtttaat aattacacg tcgagggct agccccgtg 
      ccgtataac tacccccca tccggggga tatcccctc 
      taccccacc cccacttgg agtggctac gagcccatg 
      ccgctcgct tacccgcag ttaccctac gctcaaggg 
      tatgggccg ggcttgcac atgcccagc cccaactac 
      ccctactat agttacccg caacctgcg cctgcgcac 
      ccgcctggc taccctccc tacttgggc ggcttctga
    mRNA sequence
    • >TC004290 RA
      gctcaatta aaattaaaa agttaccta tttttgaaa 
      aataaaaaa attacgaat tttatgcgt aacttcggg 
      gagcattaa ggaaagtcg tttaaaaaa agcaaggtt 
      tctggggta ggtaaatgt tgtagcttt aaaaacagg 
      actggtgct gactgaaac tttgtggga aaaaaaata 
      ccaaatgta gggtgtaaa atggaaatt tatcagtgg 
      tggttttat tggtttgaa aaaggggtt gccctctgt 
      ggagagtag acgtagtcg agggtgcgg tattgcagt 
      tttcttacc gagtgtaat gaaataatg tcattatga 
      tttttttta gtttggtgc attttttcc tagaatgcg 
      ctgatgaaa aagcgacgt caggcgtcg gagaaagcg 
      acgccgacg gagacaccg acaatgagc tccggaaca 
      aggcttcca caaaaatac aggccgata acattctat 
      tgatttttc cgaaacgtt cgttgaacc aatcacaga 
      gttgggact atttttaaa gggtgaggt tgttgttgg 
      gtttttcta aagctagtg tagcagcta gatgtaacg 
      tgtgtgcgg tttttgcgt ttttggacg agcgacagc 
      tcgggacga ccgccgatg caggtggca actcttttc 
      cgcgagtcc tccactttg ctgggagcc accatggag 
      gcgggcgga ggcggcgcc gccgccgcc accggagcc 
      ccggactcc ggagtctcc gcattacca cccggaccc 
      atcgccacc tacgactac aacaaccac ccggtgacc 
      ttctccaac aagtacaag ctaaacatg aaacttgaa 
      ccccatgat gatggttat gaaactagt gctgatatg 
      ttgctttca aacactgcc agtgttaat catgaagtg 
      aaatgtgaa aaactcgaa gatccttac agttttatt 
      gacgatgat cctattccg atgcttcct gctgctgca 
      caagggcct cctcatctt gtcaatcct atgcccccg 
      ctcaacaac caactcata ccaacagga cccaagaaa 
      agggggcgg aaaaagaag attaaacca gaagaaccg 
      ggctataat caagatatg aatggtggg attcctcgg 
      cctataaag gagcgaaaa aagcacgat cgatttaac 
      gggatgcct gaagaagag gtgtccaaa cgaacattg 
      ccggatcac cttaccgaa aatttagat ataatcatt 
      attgggata aacccgggc ttatttgcg gcctataag 
      ggtcatcac tatgccggt cctggaaac catttttgg 
      aaatgttta tatttatca ggattaaca caacagcaa 
      gtatcagct gacgaagat tataaatta cttcaagta 
      ggcattggc tttacaaat atggtacag cgtgcaacc 
      aagggtagc gctgattta actcgtaag gaaattaaa 
      gagggtagt caaatatta ttagaaaaa ttacgaaaa 
      tttcgacct aagattgcc gtttttaac ggcaagttg 
      atctatgaa gtcttctcc ggaaaaaag gatttcaag 
      ttcggacgg caacccgac ctcgtcgac ggcacaaac 
      acgtatatg tgggtgatg ccgtcgtcc agcgctcga 
      tgtgcgcaa cttcctcga gcggcggat aaagtaccg 
      ttttacgct gctttgaaa aagttccgc gattatttg 
      aacggggta ataaccgaa atcgacgaa tcggaaatg 
      gtgttttcc gagcctcgt gtgaaatcc tgctacgaa 
      gccgaacca aaacctgat ccatattcc accgaactc 
      actgacata agtaatgct gtgattaaa aaagaagac 
      ggtactatt gtaccgtgc aaaaagaag cggggtcga 
      cctaaaaaa atcaaagtc gaaggcgaa gagccgccc 
      ccgaaaccg gtggttcgc aaatcgcca ccgaccaac 
      tgtgatttc cccaaaaag aaaagaggc cggcctaaa 
      aaagtcaaa gtagagaac atggatata cccccaccc 
      gagaataat acatcgacc aacatgtct cagtgttac 
      tcgcatccg tcaccgatc caatccccg aatttctat 
      caaatgggg cccgccctc acacccccg aacagttcg 
      agtaatttg tacgccccc caaccacaa ggctacgcc 
      cctagtccc cgcccccac tcccagccc ttcacccac 
      tccgactta agctcggaa atcagcgct gcgattagt 
      tcggaacag ttgggatcg ccggcctcc cctagtctg 
      ggcccccct gatttcgag ccccctacc agtatggcc 
      gaggaggcg gagtgtcgg ctcagtagc cccgccccg 
      tcgaccaat agcgagcag acccactat ccctaccac 
      tacatggac tcctcccac gaagcgcaa tacgcgtca 
      ccccgacag ccccaggat ctggcctcg aagagtctc 
      tcgggtttg gagtctctc gtcgaccaa ataccgagc 
      ataaccgaa ggggagacg cccctcagc gaggctcca 
      gaccaatat tccggccag tttaataat tacacgtcg 
      agggctagc cccgtgccg tataactac cccccatcc 
      gggggatat cccctctac cccaccccc acttggagt 
      ggctacgag cccatgccg ctcgcttac ccgcagtta 
      ccctacgct caagggtat gggccgggc ttgcacatg 
      cccagcccc aactacccc tactatagt tacccgcaa 
      cctgcgcct gcgcacccg cctggctac cctccctac 
      ttgggcggc ttctgattg gtttccgtc actgtgtat 
      tcatgttgt gtacctgta ccatatgtt cagctagta 
      cctagcaag tctgtccgc ttgagtaca gttggtcac 
      ttgcatttt gacaacaac agagacttg cacagggta 
      aatggtgat atttttttg tcataagta ttttctcta 
      aactttgaa tgttagata ggccaaggg tttcgtgca 
      ttattctac attcagatc tcagtcgag tgtgtgtgt 
      gtgttaaac tctgagtgt gtggttcat cgttatagc 
      tgtagccca tgtcattca tttaaataa acatttgtt 
      atagctctt caagtattt tcttctccc ttccccaca 
      tatcactgc attcgatga gagaaccac aaaatactt 
      tgtaagtgg gcgactcat ttcaaaaac gttcaaaac 
      tacttttat attaacaga actgatatt tatttaata 
      ctacctact cgatgtgtt accattaca aattgtcta 
      cttttttta tatctaatg ttatattta atactcgtc 
      atagtttca cgacttgtc aaattctat cttcaattt 
      ttgtacttt aaacagtat tactaatta acgaaaaaa 
      tgatcaaat aaattttgt ttagttct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY