Status
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Gene information
General information
TC004564 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: 2381531..2389882
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
    TC004564
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08967

    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: 50.0% (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


    adult lethality - Number of animals showing the phenotype: 2 (9 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
    • >TC004564 RA
      MTNLPKIII LGAGAAGIA AASRLFENG FKDLTILEA 
      EDRIGGRIY SVEFEGSMV DLGGQWCHG EEKNAVFEL 
      VKDLDLLSS SFNNYADFT YYLSDGTVV EKNVTDQLL 
      AIARDIFED EETARKTSG TFGDYFIKE YRERVSQLC 
      GDKTIREAS GLLLDWFHK LWMCLESAK SWDELSPNG 
      AYQYKECEG DLYLQWRKT GFKTVLDVL MKKIPDPSR 
      TLPVEILLN KEVNKIIWD CDNNVTVRC TDNSAFKCD 
      HLIITASIG ALKNLSESF EPQLPPIKQ SAIDLTAIG 
      DVKKILLKF PKKWWPDSF KGLSLVWRD SDREKLSTE 
      FPQGPIKDG KSWLEYIYG FYVIDSHPD VLLGWVVGP 
      MVGEVELLP DDVVVAGCM FLLKKFVGD KYEISEPQK 
      ILRSKWRNN PHFNGCYSY RCLEAEKKN VTWEDLASP 
      VANSSSKQV LLFAGEATH PIYYSTVHG AIETGYREA 
      DRIVNLYKS PELIHRKVA IIGAGMAGL GAATTLQEL 
      GFTDFVLIE AQSKPGGRI HTLKLDDNI LELGAQWIH 
      GRDNPLWEL ARKHDLLSE IRSEEGLGL YIRDNGEII 
      DEDVVKRVD FEIGRILEA CEGFVDSVD YPKSVGEYL 
      ETRFEEYLN KCHDSDDLK EIKWELFDW HVRFQIIDN 
      SCLNLNQLS AKGWGKYVC LDDQAHFNL KCGYSELVQ 
      ILVDNLPKG SLLLSTPVA EIQPLNKII CEDGSVITC 
      DHLIVTPSL GVLKKLKFT PKLPKETIQ CIENLGYHG 
      IGKIFLIFD YKWWDVDGF QFVWRRSSI DENSWVRYI 
      TGFDPILHG PTVLLGWVG GEGVRIMES LSEEEVGIQ 
      CMELFRRFL PNRIIPNPV KVVRTTWCS NPWVLGGYS 
      HITPDCDRS NCGMQKLSE PIFVDGKPR ILMAGEAVH 
      SSHYSTAHG AYESGQQQA QVLIEYMMK GSKL
    CDS sequence
    • >TC004564 RA
      atgacaaat ctcccaaaa atcataatt ttgggggct 
      ggcgctgcc ggaattgcc gcagcgtcc cgacttttt 
      gaaaatgga tttaaagat ttgacgata ttagaggcc 
      gaagaccgg atcggtggc cgtatttat tcggttgaa 
      tttgaaggg agtatggta gatctcgga ggacaatgg 
      tgtcacggt gaagaaaaa aatgcagtg tttgagtta 
      gtcaaagac ttagatttg cttagttct tcgtttaat 
      aactacgca gactttacg tattatttg tccgacggg 
      actgtggtt gaaaaaaac gtgacggat cagttatta 
      gcaatagct cgcgacatt tttgaggac gaggaaact 
      gccaggaag acgagtggg acgtttggg gattatttt 
      attaaagag tatagggaa agagtatct caactatgt 
      ggtgataaa acaataagg gaagcctcc ggtttgcta 
      ttggattgg tttcataaa ctttggatg tgcttagag 
      tcggctaaa agttgggac gagttatca ccaaacgga 
      gcatatcaa tacaaggaa tgtgagggc gatctctac 
      ctacagtgg cgaaaaacg ggcttcaaa accgttctt 
      gatgtttta atgaaaaaa atccccgac ccgagcaga 
      acattgcca gttgaaata ctgttaaac aaagaagtt 
      aataaaatt atttgggat tgcgacaac aacgtcact 
      gttcgttgc accgacaat tcagcattt aaatgcgat 
      catttaatt atcactgca tcaattggt gcgttgaaa 
      aacctttct gaaagtttt gaaccgcaa ctacctcca 
      ataaaacaa agcgcaatt gatttaact gcaatcgga 
      gacgttaaa aaaatcttg ttgaaattt ccaaaaaaa 
      tggtggcct gacagtttc aagggcctt agtttagtt 
      tggagggac tctgaccgg gaaaaactt tcgaccgag 
      tttccgcaa ggcccaatc aaggacgga aaatcctgg 
      ttggagtac atttacggc ttctatgtt atcgatagc 
      caccctgac gtgcttctg ggttgggtt gtgggtcca 
      atggttggt gaagtagaa ctcttgcct gatgatgta 
      gtagttgct ggttgtatg ttcttgtta aaaaaattc 
      gttggtgat aaatacgaa atcagcgaa ccgcagaaa 
      attttaagg tccaagtgg cgtaacaac ccgcatttt 
      aacggctgc tactcttac cggtgttta gaagctgaa 
      aagaaaaat gtgacttgg gaagaccta gctagtcct 
      gttgctaac agtagtagt aaacaagtt ttattgttt 
      gctggagag gctactcat ccaatatat tactcgaca 
      gtgcatggg gctattgag acgggttac agggaagct 
      gatagaatt gtaaatttg tacaagtcg ccggagtta 
      attcatcgt aaagtggca attattggg gctggaatg 
      gcaggctta ggcgctgct acgacgcta caagagctc 
      ggtttcacc gatttcgtg ctaattgaa gcccagagt 
      aagcctgga ggccgcata catacctta aagctcgac 
      gataacatt cttgaattg ggggcccag tggatacac 
      ggcagagac aatcctttg tgggaactg gcgcgcaaa 
      catgatctc ctctccgaa ataagatca gaggaagga 
      ttggggctt tatattaga gataatggt gaaattatt 
      gatgaggat gtggttaag agagtggat tttgagatt 
      gggaggatt ctcgaggcc tgtgaaggg ttcgtcgat 
      tctgttgat tatccgaaa tcggtcggg gaatattta 
      gaaacgcgg tttgaggag tatttgaat aaatgccat 
      gatagtgac gacttgaag gagattaaa tgggaattg 
      ttcgattgg cacgtgcgc ttccagatt atagacaat 
      tcgtgcttg aatttaaac cagctatcg gcgaaaggt 
      tggggaaaa tatgtttgt ttagacgac caagcgcat 
      tttaatctt aaatgcggg tatagcgag ttggttcaa 
      attttggtc gataactta ccgaaaggc tctcttctg 
      ctgtcgaca cctgttgct gaaattcaa cccttgaat 
      aaaataata tgtgaagat gggtcggta ataacttgc 
      gatcacctc attgtcaca ccttcactt ggtgtttta 
      aaaaaacta aaattcaca cccaagtta ccaaaagag 
      acgattcaa tgcattgaa aatctcgga tatcacggg 
      attggtaaa atattcctg atatttgac tataaatgg 
      tgggacgtt gatggattt caattcgtt tggaggcga 
      agctcgatt gatgagaat agttgggtt agatatatc 
      acaggcttt gatccgatt ttacacgga cctacagtc 
      ctcctaggc tgggttgga ggtgaagga gtaagaatt 
      atggaaagt ttaagtgag gaggaggtc ggaattcaa 
      tgcatggag ttattcaga cgatttctt ccgaaccga 
      attatacca aacccggtg aaagtcgta aggactact 
      tggtgttcc aatccctgg gtcctgggt gggtatagc 
      cacattacg ccggattgc gatcggtct aattgtgga 
      atgcagaag ctgtcggaa cccatattc gttgacggt 
      aaaccaaga atattaatg gcaggtgaa gctgtgcat 
      tcttcccat tattcgaca gctcatggc gcgtatgaa 
      tcaggccag caacaagct caagtgtta atcgaatac 
      atgatgaaa ggttccaag ttgtaa
    mRNA sequence
    • >TC004564 RA
      cgatagttt tagatttgc cacgcgaaa aatgacaaa 
      tctcccaaa aatcataat tttgggggc tggcgctgc 
      cggaattgc cgcagcgtc ccgactttt tgaaaatgg 
      atttaaaga tttgacgat attagaggc cgaagaccg 
      gatcggtgg ccgtattta ttcggttga atttgaagg 
      gagtatggt agatctcgg aggacaatg gtgtcacgg 
      tgaagaaaa aaatgcagt gtttgagtt agtcaaaga 
      cttagattt gcttagttc ttcgtttaa taactacgc 
      agactttac gtattattt gtccgacgg gactgtggt 
      tgaaaaaaa cgtgacgga tcagttatt agcaatagc 
      tcgcgacat ttttgagga cgaggaaac tgccaggaa 
      gacgagtgg gacgtttgg ggattattt tattaaaga 
      gtataggga aagagtatc tcaactatg tggtgataa 
      aacaataag ggaagcctc cggtttgct attggattg 
      gtttcataa actttggat gtgcttaga gtcggctaa 
      aagttggga cgagttatc accaaacgg agcatatca 
      atacaagga atgtgaggg cgatctcta cctacagtg 
      gcgaaaaac gggcttcaa aaccgttct tgatgtttt 
      aatgaaaaa aatccccga cccgagcag aacattgcc 
      agttgaaat actgttaaa caaagaagt taataaaat 
      tatttggga ttgcgacaa caacgtcac tgttcgttg 
      caccgacaa ttcagcatt taaatgcga tcatttaat 
      tatcactgc atcaattgg tgcgttgaa aaacctttc 
      tgaaagttt tgaaccgca actacctcc aataaaaca 
      aagcgcaat tgatttaac tgcaatcgg agacgttaa 
      aaaaatctt gttgaaatt tccaaaaaa atggtggcc 
      tgacagttt caagggcct tagtttagt ttggaggga 
      ctctgaccg ggaaaaact ttcgaccga gtttccgca 
      aggcccaat caaggacgg aaaatcctg gttggagta 
      catttacgg cttctatgt tatcgatag ccaccctga 
      cgtgcttct gggttgggt tgtgggtcc aatggttgg 
      tgaagtaga actcttgcc tgatgatgt agtagttgc 
      tggttgtat gttcttgtt aaaaaaatt cgttggtga 
      taaatacga aatcagcga accgcagaa aattttaag 
      gtccaagtg gcgtaacaa cccgcattt taacggctg 
      ctactctta ccggtgttt agaagctga aaagaaaaa 
      tgtgacttg ggaagacct agctagtcc tgttgctaa 
      cagtagtag taaacaagt tttattgtt tgctggaga 
      ggctactca tccaatata ttactcgac agtgcatgg 
      ggctattga gacgggtta cagggaagc tgatagaat 
      tgtaaattt gtacaagtc gccggagtt aattcatcg 
      taaagtggc aattattgg ggctggaat ggcaggctt 
      aggcgctgc tacgacgct acaagagct cggtttcac 
      cgatttcgt gctaattga agcccagag taagcctgg 
      aggccgcat acatacctt aaagctcga cgataacat 
      tcttgaatt gggggccca gtggataca cggcagaga 
      caatccttt gtgggaact ggcgcgcaa acatgatct 
      cctctccga aataagatc agaggaagg attggggct 
      ttatattag agataatgg tgaaattat tgatgagga 
      tgtggttaa gagagtgga ttttgagat tgggaggat 
      tctcgaggc ctgtgaagg gttcgtcga ttctgttga 
      ttatccgaa atcggtcgg ggaatattt agaaacgcg 
      gtttgagga gtatttgaa taaatgcca tgatagtga 
      cgacttgaa ggagattaa atgggaatt gttcgattg 
      gcacgtgcg cttccagat tatagacaa ttcgtgctt 
      gaatttaaa ccagctatc ggcgaaagg ttggggaaa 
      atatgtttg tttagacga ccaagcgca ttttaatct 
      taaatgcgg gtatagcga gttggttca aattttggt 
      cgataactt accgaaagg ctctcttct gctgtcgac 
      acctgttgc tgaaattca acccttgaa taaaataat 
      atgtgaaga tgggtcggt aataacttg cgatcacct 
      cattgtcac accttcact tggtgtttt aaaaaaact 
      aaaattcac acccaagtt accaaaaga gacgattca 
      atgcattga aaatctcgg atatcacgg gattggtaa 
      aatattcct gatatttga ctataaatg gtgggacgt 
      tgatggatt tcaattcgt ttggaggcg aagctcgat 
      tgatgagaa tagttgggt tagatatat cacaggctt 
      tgatccgat tttacacgg acctacagt cctcctagg 
      ctgggttgg aggtgaagg agtaagaat tatggaaag 
      tttaagtga ggaggaggt cggaattca atgcatgga 
      gttattcag acgatttct tccgaaccg aattatacc 
      aaacccggt gaaagtcgt aaggactac ttggtgttc 
      caatccctg ggtcctggg tgggtatag ccacattac 
      gccggattg cgatcggtc taattgtgg aatgcagaa 
      gctgtcgga acccatatt cgttgacgg taaaccaag 
      aatattaat ggcaggtga agctgtgca ttcttccca 
      ttattcgac agctcatgg cgcgtatga atcaggcca 
      gcaacaagc tcaagtgtt aatcgaata catgatgaa 
      aggttccaa gttgtaaat gagtttgaa ataaattga 
      gtgaaattg g
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY