Status
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Gene information
General information
TC001709 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_007416.3: 7937490..7942890
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
    TC001709
    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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    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_00284

    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: 33.33% (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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 11.11% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 44.44% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001709 RA
      MLKNLLENR HSIGSVNND TCLTTRRAN ATVISNVYE 
      GIPETILLN VITWILLIL LFAILRNRA WDYGRLALV 
      HTEKWTQLF YKNTDDAVA VEESSADVS LIPDAGCLW 
      FPSIFKISR ERIFTRCGP DASHYLSFQ EQLLFLSTT 
      ITVFALCVI LPINFQGTL QGGKTTFGH TTLSNLEPS 
      SYWLWVHVV ASFCFVPLT VLIMRKSSG RIPSASALT 
      SRTVMITHI SHAHRNIDD IKNYFTVRF PDTEIKDIQ 
      IAYRIKKLT ILEKQRALT HEAKMYCIL NNKPDLKVQ 
      PYGCIICCP WKTQNALEY YTEEEARLT DLVVAERRK 
      VLESPLGIA FITLNSEER AHHVIKSFT PGSLRHWLI 
      TKAPSPSDI NWENLEISY RNWYSKAIL INAILFLVL 
      FFLTTPVIV VNVFNNLTS AQDKFLSKL TPLLSDFLP 
      TLLLLSVSA LMPVLVAYS DEWMSHWTK SKQNHATMH 
      KAFFFLLFM VLILPSLGL TSAQAFVEW SLQTGNLTV 
      RWECVFLAD KGAFFINYV ITSALIGTA LELLRFPEL 
      AMYAFRLLR IKSEAEKTS IRKEIMSEF PFGIHYAWT 
      LLIFTISTV YSLTCPLIT PFGLLYLCL KHFVDKYNI 
      YYVYRPITM CGEGQQIHA DAVRMVRVA ILLLQLIMA 
      AFSFIRGGF NIMCAVSFI AFIVTVTFF FFLSPFPSC 
      RPIQNNNTA LPEFSEQYI APVLLSSQN IEQGDEYIV 
      SSPSSYGSS NINDIGVRL MSEIGSSVA
    CDS sequence
    • >TC001709 RA
      atgctgaag aatcttctg gagaaccgc cactccatc 
      ggatcggtc aataacgac acatgtttg acaacacgg 
      cgtgccaat gccactgtc atcagcaac gtgtacgag 
      ggtatcccc gagacgatc ctcctgaac gtcatcacc 
      tggatcttg ctgatcctc ctctttgcc attttgcgc 
      aacagggcg tgggattac ggccgtttg gccctcgtc 
      cacacggaa aaatggacc cagctgttc tacaaaaac 
      acagatgat gccgtcgcc gttgaagaa tcaagcgcc 
      gacgtgtcg ttaatcccc gacgcgggc tgtctctgg 
      ttcccttct attttcaaa atcagcaga gagcggatt 
      ttcacacgt tgtggcccg gacgcctca cactatctc 
      tctttccaa gaacaactc cttttctta tccactact 
      ataacagtg ttcgctctt tgcgttata ctcccgatc 
      aacttccaa gggactctc caagggggt aaaaccact 
      tttggtcac accactctg agcaacctg gagcccagc 
      tcctactgg ttgtgggta catgttgtc gctagtttt 
      tgcttcgtc cctttgact gttttgatc atgcggaag 
      agctccggt cggattccc agtgcctcg gcactgacc 
      tcacggact gttatgata acacacatc tcacacgca 
      caccgaaat atcgacgat attaagaat tatttcact 
      gtaaggttc ccggatacg gagatcaag gacatacaa 
      attgcctac aggattaag aaattgacg atacttgag 
      aaacagcga gccctcact catgaggct aagatgtac 
      tgtattttg aacaacaaa cctgacttg aaggtgcaa 
      ccgtacggt tgtattatt tgttgtccg tggaagaca 
      caaaacgca cttgagtac tacaccgaa gaggaggca 
      cgcctcact gatttagtt gtggcggag cgacgaaaa 
      gtcttagag agtccgctt ggtatcgct ttcattacc 
      ttaaattca gaagaacgt gcgcaccac gtcatcaaa 
      tcattcact ccggggtcg ctccgccac tggctcata 
      acaaaagcc ccttcgccg tcagacatc aactgggag 
      aacttagaa atttcgtac cggaactgg tactcgaaa 
      gcaatcctc atcaacgca atactcttc ctggtgctg 
      tttttcctc acaactccc gtgattgtg gtcaacgtc 
      ttcaacaac ttgacttcc gcacaagat aaattcttg 
      agtaagctg acgcctctc ctttccgat tttcttcca 
      actctcctc ctcctctcc gtgtccgcc ctaatgccg 
      gttctggtg gcatattcg gacgaatgg atgtcgcac 
      tggaccaaa tcgaagcaa aatcacgca actatgcac 
      aaagccttt ttctttttg ctcttcatg gtgctcatc 
      ctcccctcg ttgggtctg acgagtgcg caagcgttc 
      gtcgaatgg tcccttcaa accggcaat ctgacggtg 
      cgctgggag tgtgtcttt ttggccgac aaaggcgcg 
      ttcttcatc aattacgtg atcacgtcc gctttgatc 
      ggaacagct ttggagttg ttgcgcttc cccgagttg 
      gccatgtac gcgttccgc ctccttcgg atcaaatca 
      gaggcggag aagaccagc ataaggaag gaaatcatg 
      tcggagttt ccttttggc attcactac gcctggacc 
      ttgcttatc ttcaccata agcacggtg tacagtctc 
      acgtgccct ttgataacg cccttcggg ttgctgtac 
      ttgtgcttg aagcacttc gtcgataaa tacaatatt 
      tactacgtc tacagaccc atcaccatg tgtggcgag 
      ggccagcaa atccatgcc gatgccgtc aggatggtg 
      cgcgtcgcc attttgctc ctccagcta ataatggcc 
      gcgttttcc ttcattaga ggcggtttc aatataatg 
      tgtgcggtt agttttatt gcgttcata gtcactgtc 
      acgttcttc ttcttcttg agtccgttc ccctcttgt 
      aggccgatt caaaataac aacacagct ttacccgag 
      tttagtgag cagtacatc gcgccggtg ctattaagt 
      tcgcaaaat attgagcaa ggggatgag tatattgta 
      tcgtcacct tcgtcgtac ggttcctcg aatattaac 
      gatattggt gttaggcta atgtctgaa attggttct 
      tcggttgca taa
    mRNA sequence
    • >TC001709 RA
      tgtcatttt tattacggt ggttgttca tgataaaat 
      tattttaca gtagaaagt tgaaaatat gtacttggt 
      ttacgtaat ttagttaag tttggtgct tctgaagtt 
      gtttgtgat gaaattata gccctacaa aatgctgaa 
      gaatcttct ggagaaccg ccactccat cggatcggt 
      caataacga cacatgttt gacaacacg gcgtgccaa 
      tgccactgt catcagcaa cgtgtacga gggtatccc 
      cgagacgat cctcctgaa cgtcatcac ctggatctt 
      gctgatcct cctctttgc cattttgcg caacagggc 
      gtgggatta cggccgttt ggccctcgt ccacacgga 
      aaaatggac ccagctgtt ctacaaaaa cacagatga 
      tgccgtcgc cgttgaaga atcaagcgc cgacgtgtc 
      gttaatccc cgacgcggg ctgtctctg gttcccttc 
      tattttcaa aatcagcag agagcggat tttcacacg 
      ttgtggccc ggacgcctc acactatct ctctttcca 
      agaacaact ccttttctt atccactac tataacagt 
      gttcgctct ttgcgttat actcccgat caacttcca 
      agggactct ccaaggggg taaaaccac ttttggtca 
      caccactct gagcaacct ggagcccag ctcctactg 
      gttgtgggt acatgttgt cgctagttt ttgcttcgt 
      ccctttgac tgttttgat catgcggaa gagctccgg 
      tcggattcc cagtgcctc ggcactgac ctcacggac 
      tgttatgat aacacacat ctcacacgc acaccgaaa 
      tatcgacga tattaagaa ttatttcac tgtaaggtt 
      cccggatac ggagatcaa ggacataca aattgccta 
      caggattaa gaaattgac gatacttga gaaacagcg 
      agccctcac tcatgaggc taagatgta ctgtatttt 
      gaacaacaa acctgactt gaaggtgca accgtacgg 
      ttgtattat ttgttgtcc gtggaagac acaaaacgc 
      acttgagta ctacaccga agaggaggc acgcctcac 
      tgatttagt tgtggcgga gcgacgaaa agtcttaga 
      gagtccgct tggtatcgc tttcattac cttaaattc 
      agaagaacg tgcgcacca cgtcatcaa atcattcac 
      tccggggtc gctccgcca ctggctcat aacaaaagc 
      cccttcgcc gtcagacat caactggga gaacttaga 
      aatttcgta ccggaactg gtactcgaa agcaatcct 
      catcaacgc aatactctt cctggtgct gtttttcct 
      cacaactcc cgtgattgt ggtcaacgt cttcaacaa 
      cttgacttc cgcacaaga taaattctt gagtaagct 
      gacgcctct cctttccga ttttcttcc aactctcct 
      cctcctctc cgtgtccgc cctaatgcc ggttctggt 
      ggcatattc ggacgaatg gatgtcgca ctggaccaa 
      atcgaagca aaatcacgc aactatgca caaagcctt 
      tttcttttt gctcttcat ggtgctcat cctcccctc 
      gttgggtct gacgagtgc gcaagcgtt cgtcgaatg 
      gtcccttca aaccggcaa tctgacggt gcgctggga 
      gtgtgtctt tttggccga caaaggcgc gttcttcat 
      caattacgt gatcacgtc cgctttgat cggaacagc 
      tttggagtt gttgcgctt ccccgagtt ggccatgta 
      cgcgttccg cctccttcg gatcaaatc agaggcgga 
      gaagaccag cataaggaa ggaaatcat gtcggagtt 
      tccttttgg cattcacta cgcctggac cttgcttat 
      cttcaccat aagcacggt gtacagtct cacgtgccc 
      tttgataac gcccttcgg gttgctgta cttgtgctt 
      gaagcactt cgtcgataa atacaatat ttactacgt 
      ctacagacc catcaccat gtgtggcga gggccagca 
      aatccatgc cgatgccgt caggatggt gcgcgtcgc 
      cattttgct cctccagct aataatggc cgcgttttc 
      cttcattag aggcggttt caatataat gtgtgcggt 
      tagttttat tgcgttcat agtcactgt cacgttctt 
      cttcttctt gagtccgtt cccctcttg taggccgat 
      tcaaaataa caacacagc tttacccga gtttagtga 
      gcagtacat cgcgccggt gctattaag ttcgcaaaa 
      tattgagca aggggatga gtatattgt atcgtcacc 
      ttcgtcgta cggttcctc gaatattaa cgatattgg 
      tgttaggct aatgtctga aattggttc ttcggttgc 
      ataaatttc ttttctgct tctggtatg gctgtgatt 
      atttaggaa gtgtttcac ccgttggtt ccacctttc 
      atgtgataa ttccctaac ttttaaagt attgactca 
      ttcgtttta attcctagt ccttctttc ggtcgctta 
      acttgaaat tgcaatgaa cggtgataa cacgtaact 
      gtaggaaga ttataatat ataactatt tatttgtaa 
      agtctattt tgtatattt tagcacata actgtagag 
      ttcttgtat aaatatata attgctatg tta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY