Status
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Gene information
General information
TC000478 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: 10820855..10824197
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
    TC000478
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    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_03027

    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


    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
    • >TC000478 RA
      MPKGSKIFL PCRSLGYVS NHIPLQVRY IKSRKENLI 
      VTCVGKSFH TYGITHFGL LSVGGLHPE DITAMTADA 
      FHVYTACNN EIYAWRRGT ELKHVYRGH KKPVHLMMP 
      FGAHLISID EASSVKLWD IKDESVFLE LTFSNKTFH 
      ITTICHPST YINKILLGS EQGEMQLWN VNNLKMIYS 
      FKGWNSPIT CLEQAPAID VVAVGLACG KIKLHNLKF 
      DETIMEFMQ DWGVVTSIS FRTDGSPIM ATGSVIGHI 
      VFWDLEERR VASQLLSAH DGSVTGMIC LPSEPLILT 
      SSPDNTLKL WIFDRSDGG ARLLRIREG HSAPPSHLR 
      FHGANGHNI LSCAGDSTL RIFNTQTEQ FNKSLGKAS 
      YNRKASKKR GRTAEDPLI MPPITQFTS EITREKEWD 
      NIAAVHLGI PMVTTWSYD KVKMGELKL LPERFHKKK 
      LVSSGFHDV AATCLCLTH CGNFVLVGY STGHIDRFN 
      MQSGIWRDS YGAPKAHDA SVRGVTTDP LNQMTISGS 
      SDCKIKFWK FKNKGANPL TVLTLDEPI SFFRSHSES 
      SMLAVALED FDVYVVDID TRRIVRKFV GHTAQITDA 
      TFSPDSRWL VTSSMDCSI RTWDIPSCH LVDEFSTEV 
      ACVSLDISP TGEVLATAH VDYLGIFLW TNRTLYSKV 
      SLKALTPSV QPPLVAFPE CLTEHHEEK SEVEESDDL 
      EFISPEQIS NDLVTLSGF AASRWQNLL NLDVIKKRN 
      KPKSPPKAP KAAPFFLPT VSSLTFQFD LSKPESESS 
      KILTPSTLL NLTEFGKLL DKTRQDDDF SHVIEKLKS 
      FGPSMIDFE IKSLAPEGG GSVEVMLQF LKSVEFMLK 
      SNKDFELAE AYLGVFLKS HGTVVAAEE TLRNYLTNI 
      QSCHNVVWN RLQDKLLYN ICVVQNLKM M
    CDS sequence
    • >TC000478 RA
      atgcctaaa ggcagcaaa atatttttg ccctgtcgg 
      agcttaggg tacgtcagc aaccacatc ccgcttcag 
      gtccgctac ataaaaagt cgcaaagaa aatctaata 
      gtgacatgt gtggggaaa tcgtttcac acgtacgga 
      ataacacac tttggcctg ttaagtgtc ggtggtttg 
      caccccgaa gacataact gcgatgacc gctgatgcc 
      tttcatgtg tacacagcg tgcaataat gagatttat 
      gcctggaga agaggcact gagttgaaa catgtctat 
      agaggacac aagaaaccg gttcatttg atgatgcct 
      tttggggca catttgatt tcaattgat gaggccagt 
      agtgttaaa ctgtgggat attaaggat gagagtgtt 
      tttcttgaa ctcacgttt agtaacaag acattccat 
      atcaccaca atctgccac cccagcact tatattaat 
      aagattttg ttgggtagt gaacaggga gagatgcag 
      ttatggaat gtcaataat ttgaaaatg atttattcc 
      ttcaagggg tggaacagc cccattact tgcttggaa 
      caagcgcct gcaattgat gtggttgct gttggtttg 
      gcttgcggt aaaatcaaa ttacacaat ttaaaattc 
      gacgagacc ataatggaa tttatgcaa gattggggc 
      gtcgtcact tcgatatca tttaggacc gatggtagt 
      cccataatg gcaacagga agtgtaata ggccatata 
      gtattttgg gatttggaa gaaagacgc gtcgcgagc 
      caactactt tctgcccac gacggcagc gttacagga 
      atgatttgt ctcccgagt gaaccttta atcctaact 
      tcgtctcca gacaatact ttaaaatta tggatcttt 
      gacaggtca gacggtggt gccagactt ttaagaata 
      agagaaggc cattcagca ccgccgtct caccttaga 
      tttcacggt gctaacgga cacaacatt ttaagttgc 
      gctggagat tcaacactg agaatattt aatacgcaa 
      actgagcaa ttcaataaa agtctagga aaagcgtcg 
      tacaacaga aaagcgtca aagaagcgc gggagaacc 
      gccgaagac ccgctaatt atgccacca atcacacaa 
      tttacttcc gaaattaca agggagaaa gaatgggat 
      aatatcgca gcggtacat ttggggata cccatggtt 
      accacatgg tcttacgat aaggtgaag atgggcgaa 
      ttgaaattg cttcctgaa cggtttcac aagaaaaaa 
      ctcgtttct agtgggttt cacgacgtt gctgcgacg 
      tgtttgtgt ctaacacat tgtggaaac tttgttctt 
      gttgggtac agcacagga catattgat aggtttaac 
      atgcagtca ggtatttgg cgcgacagt tacggcgcc 
      cccaaagcc cacgatgca tcggttaga ggagtaaca 
      accgatcct ttaaatcag atgacaata agtggaagc 
      agtgattgt aaaatcaaa ttttggaag tttaaaaat 
      aaaggagcc aatccattg acggtctta acactggac 
      gagccaatc agttttttt cggtcgcat tcagaaagc 
      tcaatgttg gccgttgcc ctcgaagac tttgacgtt 
      tacgtagta gatatcgac acgagacga atcgtgcga 
      aaatttgtg gggcacacg gcacaaata accgacgca 
      acatttagc cctgactct cgctggttg gtgacttca 
      tcaatggat tgttccata cgtacgtgg gacatacct 
      tcgtgtcat ttagtggac gagttcagt acagaggtg 
      gcctgcgtt tcattggac atttcgccg accggggaa 
      gtcctggct acagcacat gtcgattac ttggggatt 
      tttctgtgg acaaatcga actttatac tcaaaagta 
      tcactgaag gctttaaca ccaagcgtt caaccgcca 
      ctggtcgct ttccctgaa tgtctcaca gagcaccac 
      gaagagaaa agcgaggtg gaagaatcc gacgatctg 
      gaattcata tcgcccgaa caaattagc aacgacttg 
      gttaccttg tcaggcttt gctgcctca aggtggcag 
      aatttgttg aatttggat gtgatcaag aagaggaat 
      aaacccaaa tccccgcct aaggcacct aaagccgca 
      ccgtttttc ctaccgact gtttcatct ttaactttc 
      caattcgat ttgtcaaaa cccgaatct gagagtagt 
      aaaatattg acgccaagc actttattg aatctaacc 
      gaatttggg aaattattg gataaaacg agacaagac 
      gacgatttt agccacgtt attgagaag ctaaagtcg 
      tttggtccg tctatgatt gactttgaa ataaagtct 
      ttggcccct gaaggtgga ggctcagtt gaagtgatg 
      ctacagttt ctgaagagt gtcgaattt atgttgaaa 
      tcgaacaaa gactttgag ttagcggag gcctacctt 
      ggcgtcttt ctaaaatca cacgggaca gtggttgca 
      gccgaggag actttgagg aattattta accaatatc 
      cagagttgt cacaatgtt gtatggaat aggttgcaa 
      gataaattg ttgtacaat atttgtgtt gttcaaaac 
      ttaaaaatg atgtaa
    mRNA sequence
    • >TC000478 RA
      tccacgtgt gtgtgttta ctgatttaa atttaccga 
      aatctgaaa tgcctaaag gcagcaaaa tatttttgc 
      cctgtcgga gcttagggt acgtcagca accacatcc 
      cgcttcagg tccgctaca taaaaagtc gcaaagaaa 
      atctaatag tgacatgtg tggggaaat cgtttcaca 
      cgtacggaa taacacact ttggcctgt taagtgtcg 
      gtggtttgc accccgaag acataactg cgatgaccg 
      ctgatgcct ttcatgtgt acacagcgt gcaataatg 
      agatttatg cctggagaa gaggcactg agttgaaac 
      atgtctata gaggacaca agaaaccgg ttcatttga 
      tgatgcctt ttggggcac atttgattt caattgatg 
      aggccagta gtgttaaac tgtgggata ttaaggatg 
      agagtgttt ttcttgaac tcacgttta gtaacaaga 
      cattccata tcaccacaa tctgccacc ccagcactt 
      atattaata agattttgt tgggtagtg aacagggag 
      agatgcagt tatggaatg tcaataatt tgaaaatga 
      tttattcct tcaaggggt ggaacagcc ccattactt 
      gcttggaac aagcgcctg caattgatg tggttgctg 
      ttggtttgg cttgcggta aaatcaaat tacacaatt 
      taaaattcg acgagacca taatggaat ttatgcaag 
      attggggcg tcgtcactt cgatatcat ttaggaccg 
      atggtagtc ccataatgg caacaggaa gtgtaatag 
      gccatatag tattttggg atttggaag aaagacgcg 
      tcgcgagcc aactacttt ctgcccacg acggcagcg 
      ttacaggaa tgatttgtc tcccgagtg aacctttaa 
      tcctaactt cgtctccag acaatactt taaaattat 
      ggatctttg acaggtcag acggtggtg ccagacttt 
      taagaataa gagaaggcc attcagcac cgccgtctc 
      accttagat ttcacggtg ctaacggac acaacattt 
      taagttgcg ctggagatt caacactga gaatattta 
      atacgcaaa ctgagcaat tcaataaaa gtctaggaa 
      aagcgtcgt acaacagaa aagcgtcaa agaagcgcg 
      ggagaaccg ccgaagacc cgctaatta tgccaccaa 
      tcacacaat ttacttccg aaattacaa gggagaaag 
      aatgggata atatcgcag cggtacatt tggggatac 
      ccatggtta ccacatggt cttacgata aggtgaaga 
      tgggcgaat tgaaattgc ttcctgaac ggtttcaca 
      agaaaaaac tcgtttcta gtgggtttc acgacgttg 
      ctgcgacgt gtttgtgtc taacacatt gtggaaact 
      ttgttcttg ttgggtaca gcacaggac atattgata 
      ggtttaaca tgcagtcag gtatttggc gcgacagtt 
      acggcgccc ccaaagccc acgatgcat cggttagag 
      gagtaacaa ccgatcctt taaatcaga tgacaataa 
      gtggaagca gtgattgta aaatcaaat tttggaagt 
      ttaaaaata aaggagcca atccattga cggtcttaa 
      cactggacg agccaatca gtttttttc ggtcgcatt 
      cagaaagct caatgttgg ccgttgccc tcgaagact 
      ttgacgttt acgtagtag atatcgaca cgagacgaa 
      tcgtgcgaa aatttgtgg ggcacacgg cacaaataa 
      ccgacgcaa catttagcc ctgactctc gctggttgg 
      tgacttcat caatggatt gttccatac gtacgtggg 
      acatacctt cgtgtcatt tagtggacg agttcagta 
      cagaggtgg cctgcgttt cattggaca tttcgccga 
      ccggggaag tcctggcta cagcacatg tcgattact 
      tggggattt ttctgtgga caaatcgaa ctttatact 
      caaaagtat cactgaagg ctttaacac caagcgttc 
      aaccgccac tggtcgctt tccctgaat gtctcacag 
      agcaccacg aagagaaaa gcgaggtgg aagaatccg 
      acgatctgg aattcatat cgcccgaac aaattagca 
      acgacttgg ttaccttgt caggctttg ctgcctcaa 
      ggtggcaga atttgttga atttggatg tgatcaaga 
      agaggaata aacccaaat ccccgccta aggcaccta 
      aagccgcac cgtttttcc taccgactg tttcatctt 
      taactttcc aattcgatt tgtcaaaac ccgaatctg 
      agagtagta aaatattga cgccaagca ctttattga 
      atctaaccg aatttggga aattattgg ataaaacga 
      gacaagacg acgatttta gccacgtta ttgagaagc 
      taaagtcgt ttggtccgt ctatgattg actttgaaa 
      taaagtctt tggcccctg aaggtggag gctcagttg 
      aagtgatgc tacagtttc tgaagagtg tcgaattta 
      tgttgaaat cgaacaaag actttgagt tagcggagg 
      cctaccttg gcgtctttc taaaatcac acgggacag 
      tggttgcag ccgaggaga ctttgagga attatttaa 
      ccaatatcc agagttgtc acaatgttg tatggaata 
      ggttgcaag ataaattgt tgtacaata tttgtgttg 
      ttcaaaact taaaaatga tgtaaataa aacgaaaat 
      ttttaattg tttcgtttc ttaccctgt ttgaggcac 
      aaattacac tagaataaa caaaaattg gggccatgt 
      ctttgaatt ttgttaacg cgcggccgg taatatcgg 
      gcgcaatat tatcatcat agcacgaaa ttcgtaaac 
      aagaataaa ccaaaggga ttatt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY