Status
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Gene information
General information
TC002088 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_007425.3: 5967224..5970519
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
    TC002088
    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
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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_00325

    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: 40.0% (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: 2 (3 dpi)
    Days post injection


    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    egg chamber number decreased - Number of animals showing the phenotype: 1

    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    larva lethality late (L7) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002088 RA
      MDPQELDQR LRDMQHEYL DFLDDEEDQ GKYATLVKN 
      MVADHSLRL VVNVNDLRR KNPARAAAL LTNAFEEHS 
      AFQKALKEY VYTVAHDYA KENDEFFIA FEGSFGNKH 
      VTPRSLTSR FLGNLVCVE GIVTKCSLV HPKVVRSVH 
      FCPVTKKVM ERKYTDLTS LDAFPTSSV YPTKDEDGN 
      LLETEFGLS VYKDHQTIS IQEMPEKAP AGQLPRSVD 
      IICDNDLVD RCKPGDRIQ VVGNYRCLP NKQGSFTNG 
      IFRTVVIAS NVSQLSKEA NPSISREDV AKCKNLAKS 
      NKNVFELLA KSLAPSIHG HEYIKKAIL CLLLGGVEK 
      ILPNGTRLR GDINVLLIG DPSVAKSQL LRYVLCTAP 
      RAIPTTGRG SSGVGLTAA VTTDQETGE RRLEAGAMV 
      LADRGVVCI DEFDKMSDM DRTAIHEVM EQGRVTIAK 
      AGIHASLNA RCSVLAAAN PVYGKYDQY KTPMENIGL 
      QDSLLSRFD LLFVMLDSV DEDHDLMIS DHVVRMHRY 
      RNPGEQDGE VLPMGSSVD MLSTMRPEE VDDDKVTPM 
      YEKYDALLH GESRKKTDK ILSVDFMRK YIHFVKILK 
      PTLTEQASE IIADEYSKL RSEDVLENH VARTQPVTP 
      RTLETMIRL ATAHAKARM SRTVTAQDA YAAIELVQY 
      AYFKKVLEK EKKRRRNAQ SESENEEME EESQRTKKS 
      RQEVEESEE EMETETIEI DSTPAMITS ERLTQFRSS 
      LDRAFRDNR AQSLSLARI RDSVNTDNI APFSQGEIR 
      AAIDQMTEA NQVMLADGI VFLI
    CDS sequence
    • >TC002088 RA
      atggacccc caggagcta gaccagcgc ctccgcgac 
      atgcagcac gagtacttg gacttcctc gatgacgag 
      gaggaccaa ggcaagtac gccacactt gttaaaaac 
      atggttgcg gaccacagt ttgcggctt gtggtgaat 
      gtcaatgat ttgcgccgc aaaaacccg gccagggct 
      gccgccctc ctcactaac gcttttgag gagcattcg 
      gcgtttcag aaagccctc aaagagtat gtttacaca 
      gtcgcgcac gactatgcc aaggaaaac gacgagttt 
      ttcatcgcc tttgagggg agcttcggc aataagcat 
      gttactcca aggagtttg acttcgagg tttttgggg 
      aatttggtc tgtgttgag gggattgtg acgaaatgc 
      tcgttggtg caccccaag gtcgtccgg agtgtccac 
      ttttgtcca gtaacgaaa aaagtaatg gaaaggaaa 
      tacactgat ttgacttcg ttagatgcc ttccccaca 
      tcgtcggtg taccccact aaagacgag gatggcaat 
      ttattggag acagaattt gggctttcg gtgtataaa 
      gaccaccaa actatttcc attcaggag atgcctgaa 
      aaggccccc gcggggcag ttgccccgt tcggttgat 
      ataatctgc gataatgac cttgttgat aggtgcaaa 
      cccggggac cgcatacaa gtggtgggg aactaccgg 
      tgccttccc aacaaacag gggagcttc actaacggc 
      attttccgc actgtggtg attgcaagt aacgtgtcc 
      caactgtca aaagaagca aatccttcc atttcacgt 
      gaagacgtc gccaaatgt aaaaacttg gccaaatcg 
      aacaaaaac gtctttgaa ttattagcc aagtctttg 
      gcgccgtca atccacggc cacgagtac atcaagaag 
      gcgatcctg tgcctcctt ttgggcgga gtcgagaag 
      atcctgccc aatgggacg cgcctaaga ggggacata 
      aacgtgtta ctgattggc gatcccagc gttgctaag 
      tcacagctc ctccgatac gtgttatgc accgcccct 
      cgggccatt cccaccact gggcgtgga tcgtcgggg 
      gttggtcta accgcagcg gttacaacc gatcaggag 
      accggcgag aggcggtta gaggccggt gcgatggtt 
      ttggccgat cgtggcgtc gtgtgcatt gatgagttc 
      gacaagatg tcggatatg gacaggacg gccattcat 
      gaggtcatg gaacagggg cgtgtcact attgccaag 
      gcggggatt cacgcaagt ttgaatgcc aggtgctcg 
      gttttggcg gcggccaat ccggtttac ggaaagtat 
      gatcagtac aagacgcca atggaaaac atcgggttg 
      caagactcg ctcctgtcg cggtttgat ttgctgttc 
      gtgatgttg gattcagtg gatgaggat catgatttg 
      atgatttcg gatcacgtg gtcaggatg caccgatat 
      agaaatccg ggtgagcaa gatggcgaa gtcctgcca 
      atgggctca agcgtggac atgttgagt acaatgcgc 
      cccgaggaa gtcgacgac gacaaggtc acccccatg 
      tatgaaaaa tacgacgca cttctacac ggtgaaagt 
      cgcaaaaaa accgacaaa atcctaagt gtggatttc 
      atgcgtaaa tacatccat ttcgtgaaa atcctcaaa 
      ccgacacta accgaacaa gcgtcggaa atcatcgcc 
      gatgagtac tccaaactc aggtcggag gacgtcctt 
      gaaaatcac gtcgcccgg acacaacct gtgacaccc 
      cgtacgctt gaaaccatg atccgattg gccacagcg 
      catgccaaa gcccgcatg tctcgcact gttaccgca 
      caagacgcc tacgcagca attgaattg gtgcaatat 
      gcctatttc aaaaaagtg ctcgagaag gagaaaaaa 
      cggcgaaga aacgcacaa tccgagtcc gaaaatgaa 
      gaaatggag gaggaatca caaagaacg aagaaatcg 
      cggcaagaa gtggaagaa agtgaggaa gaaatggag 
      actgaaaca attgaaatt gactcaacg cctgccatg 
      atcacgagt gagaggctg actcagttt cggtcaagt 
      ctcgacagg gctttccgg gacaacagg gcgcagtct 
      ctaagtctt gcccgcatc cgcgactcc gtcaacact 
      gacaatata gcccccttc agccaaggc gaaatccga 
      gccgcaatt gaccaaatg actgaagcc aaccaagtg 
      atgttggcg gacgggatc gtatttctc atctaa
    mRNA sequence
    • >TC002088 RA
      ttcccgcca aaactcctc ccgtgtttt cgcccgtta 
      ttacccgca tttccagtg ttaagtgcc ccattatgg 
      acccccagg agctagacc agcgcctcc gcgacatgc 
      agcacgagt acttggact tcctcgatg acgaggagg 
      accaaggca agtacgcca cacttgtta aaaacatgg 
      ttgcggacc acagtttgc ggcttgtgg tgaatgtca 
      atgatttgc gccgcaaaa acccggcca gggctgccg 
      ccctcctca ctaacgctt ttgaggagc attcggcgt 
      ttcagaaag ccctcaaag agtatgttt acacagtcg 
      cgcacgact atgccaagg aaaacgacg agtttttca 
      tcgcctttg aggggagct tcggcaata agcatgtta 
      ctccaagga gtttgactt cgaggtttt tggggaatt 
      tggtctgtg ttgagggga ttgtgacga aatgctcgt 
      tggtgcacc ccaaggtcg tccggagtg tccactttt 
      gtccagtaa cgaaaaaag taatggaaa ggaaataca 
      ctgatttga cttcgttag atgccttcc ccacatcgt 
      cggtgtacc ccactaaag acgaggatg gcaatttat 
      tggagacag aatttgggc tttcggtgt ataaagacc 
      accaaacta tttccattc aggagatgc ctgaaaagg 
      cccccgcgg ggcagttgc cccgttcgg ttgatataa 
      tctgcgata atgaccttg ttgataggt gcaaacccg 
      gggaccgca tacaagtgg tggggaact accggtgcc 
      ttcccaaca aacagggga gcttcacta acggcattt 
      tccgcactg tggtgattg caagtaacg tgtcccaac 
      tgtcaaaag aagcaaatc cttccattt cacgtgaag 
      acgtcgcca aatgtaaaa acttggcca aatcgaaca 
      aaaacgtct ttgaattat tagccaagt ctttggcgc 
      cgtcaatcc acggccacg agtacatca agaaggcga 
      tcctgtgcc tccttttgg gcggagtcg agaagatcc 
      tgcccaatg ggacgcgcc taagagggg acataaacg 
      tgttactga ttggcgatc ccagcgttg ctaagtcac 
      agctcctcc gatacgtgt tatgcaccg cccctcggg 
      ccattccca ccactgggc gtggatcgt cgggggttg 
      gtctaaccg cagcggtta caaccgatc aggagaccg 
      gcgagaggc ggttagagg ccggtgcga tggttttgg 
      ccgatcgtg gcgtcgtgt gcattgatg agttcgaca 
      agatgtcgg atatggaca ggacggcca ttcatgagg 
      tcatggaac aggggcgtg tcactattg ccaaggcgg 
      ggattcacg caagtttga atgccaggt gctcggttt 
      tggcggcgg ccaatccgg tttacggaa agtatgatc 
      agtacaaga cgccaatgg aaaacatcg ggttgcaag 
      actcgctcc tgtcgcggt ttgatttgc tgttcgtga 
      tgttggatt cagtggatg aggatcatg atttgatga 
      tttcggatc acgtggtca ggatgcacc gatatagaa 
      atccgggtg agcaagatg gcgaagtcc tgccaatgg 
      gctcaagcg tggacatgt tgagtacaa tgcgccccg 
      aggaagtcg acgacgaca aggtcaccc ccatgtatg 
      aaaaatacg acgcacttc tacacggtg aaagtcgca 
      aaaaaaccg acaaaatcc taagtgtgg atttcatgc 
      gtaaataca tccatttcg tgaaaatcc tcaaaccga 
      cactaaccg aacaagcgt cggaaatca tcgccgatg 
      agtactcca aactcaggt cggaggacg tccttgaaa 
      atcacgtcg cccggacac aacctgtga caccccgta 
      cgcttgaaa ccatgatcc gattggcca cagcgcatg 
      ccaaagccc gcatgtctc gcactgtta ccgcacaag 
      acgcctacg cagcaattg aattggtgc aatatgcct 
      atttcaaaa aagtgctcg agaaggaga aaaaacggc 
      gaagaaacg cacaatccg agtccgaaa atgaagaaa 
      tggaggagg aatcacaaa gaacgaaga aatcgcggc 
      aagaagtgg aagaaagtg aggaagaaa tggagactg 
      aaacaattg aaattgact caacgcctg ccatgatca 
      cgagtgaga ggctgactc agtttcggt caagtctcg 
      acagggctt tccgggaca acagggcgc agtctctaa 
      gtcttgccc gcatccgcg actccgtca acactgaca 
      atatagccc ccttcagcc aaggcgaaa tccgagccg 
      caattgacc aaatgactg aagccaacc aagtgatgt 
      tggcggacg ggatcgtat ttctcatct aattgtaac 
      aattaatta aataaaaac tgcgatttt tt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY