Status
Please wait ...
Gene information
General information
TC000170 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: 15102943..15104989
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
    TC000170
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00033

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    Phenotype after larval injection
    TR: 11557 potentially confused/crosscontaminated with : iB # (comma separated) 9
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    remarks: later than schedule, hours 24 adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Pupal morphology
    remarks: later than schedule, hours 24
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000170 RA
      MAVSNTTLP SLYEYYTSG GITSGLSAN QSYFTLNNR 
      NVTLYSGAM HYFRVPRQY WRDRLRKMR AAGLNTVET 
      YIPWNLHEP FNNFYDFGN GGSDMEEFL DVRQFLTIA 
      QEEDLFAII RPGPYICSE WEFGGFPSW LLRYHDIKL 
      RTSDPTYMK FVTRYFNLL LSLLAIFQF TRGGPIIAF 
      QVENEYGST EQPGKFTPD KVYLKQLRQ IMLNNGIVE 
      LLVTSDSPT LHGTAGTLP EYFLQTANF ASDPETEFD 
      KLKQLQKNR PTMAMEFWT GWFDHWSEK HHTRDNSDF 
      YDVFDRILK YPASVNMYM FHGGTNWGF YNGANLNND 
      AMDNSGYQP DTTSYDYDA PLSENGDYT EKYHIVKQL 
      IGKYSQVKT RVPQPPAGT PSHKYPTVP IIGQLLLDE 
      LIKLVPVTF QNRVPLPME LLPLNNYSG QSYGYVVYR 
      KVNVTIPAN ATLRITGHV CDTVTVLVD GFLLNKPLK 
      KSRDLDHFG YWRLKNSTI TLSTQNLTG ATLDLMVEN 
      WGRNNFGHL EQFNQFKGL WQGGVFLND EELLNWQII 
      PLEFRKKWS MGLNGWHGT YQRWAPGPA LYRAILTVE 
      VPQDTFIDM EKWVKGIVI VNGFVLGRF ARIGPQQTL 
      YLPGPFLKK GNNTILVFD HFARGHEVS FSQTAKYKT 
      RGKFNFW
    CDS sequence
    • >TC000170 RA
      atggctgtg tctaacaca actttgcct tctctctac 
      gaatattac actagtggt ggcattaca agcggcctt 
      tcagccaat caatcgtac tttacgtta aacaatcga 
      aatgtgaca ctttacagt ggtgctatg cattatttc 
      cgggtacca cggcagtac tggagagat cgtttgcgt 
      aaaatgcga gctgctggc ctaaacact gttgaaacc 
      tacattccc tggaatttg cacgaaccg tttaacaat 
      ttctacgac tttggaaac ggtggtagt gacatggag 
      gagttcctg gacgtccgc cagttcctg acaattgca 
      caggaagaa gatttgttt gcaatcatc cggccagga 
      ccttacatt tgttccgaa tgggaattt ggagggttc 
      cctagttgg ttgttgcgt taccacgat attaaatta 
      cgtacttca gacccaact tatatgaaa ttcgtgaca 
      cggtacttt aacctactc ctttcatta cttgccatt 
      tttcaattc acacgtgga gggccgatt atagcgttt 
      caagtcgaa aatgagtat ggcagtacc gaacaacct 
      ggcaaattc acacctgac aaggtttac ctcaaacag 
      ttacgccaa attatgcta aataacgga atagtcgag 
      ttgttggta acgtcagat agcccaaca cttcatggt 
      actgctggt accttacct gagtacttc ctccaaacg 
      gcaaacttc gcctctgat cccgaaacc gaatttgac 
      aaacttaaa caattgcaa aagaatcga ccaaccatg 
      gctatggaa ttctggact gggtggttc gaccattgg 
      tccgaaaaa caccacaca agggataat agcgatttt 
      tacgacgtt tttgaccga attttgaag tacccagct 
      tcggtcaac atgtacatg tttcatggt ggtactaac 
      tgggggttt tacaacggt gccaactta aataacgac 
      gctatggac aactctggg taccaacca gacaccaca 
      agttacgat tatgacgcc ccattgtcc gaaaatggt 
      gattatacc gaaaagtac cacattgtt aaacaatta 
      attgggaag tacagtcaa gtcaagaca cgggtacca 
      caaccacca gctggcaca cctagtcat aagtaccca 
      acggtacca attattggg caattgcta ttggatgaa 
      ttgatcaaa ttggtacca gtgacgttc caaaatcgg 
      gtaccacta ccaatggag ttgctcccg ttaaataat 
      tactcgggg cagagttac ggttatgtg gtttatcgt 
      aaagtgaat gtgacaata ccggcaaat gccactcta 
      cgtatcaca ggccacgtg tgcgacacg gtcacagtc 
      ctagttgat gggttccta ctgaacaaa ccattgaaa 
      aaatcgcgt gatttggac cactttggt tattggcgt 
      ctcaaaaac tccacaatt acgctcagt acccaaaac 
      ttgaccggt gccactttg gacctgatg gtggaaaat 
      tggggccga aacaatttc ggacatttg gaacagttt 
      aaccagttc aagggttta tggcaaggt ggtgtgttt 
      ttaaacgat gaagaattg ctcaattgg caaattata 
      ccattggag tttcgcaag aaatggtca atgggtttg 
      aatggttgg catgggacg taccaacga tgggcacct 
      ggtccggcc ctttaccgt gcgatttta accgttgaa 
      gtaccgcaa gacacgttt attgacatg gaaaagtgg 
      gttaagggc attgttata gtcaatggg tttgtttta 
      gggcggttt gcaaggatc gggccgcaa caaacgttg 
      taccttcct gggcccttt ttaaaaaaa gggaacaac 
      acgattttg gtgtttgat cattttgca cgaggtcat 
      gaagtgagt ttttcacaa acagccaag tataaaaca 
      aggggcaaa tttaatttt tggtaa
    mRNA sequence
    • >TC000170 RA
      aaactccag ttgataagc caacacaaa cactgaaaa 
      ttggaacag tttaattga ataatggct gtgtctaac 
      acaactttg ccttctctc tacgaatat tacactagt 
      ggtggcatt acaagcggc ctttcagcc aatcaatcg 
      tactttacg ttaaacaat cgaaatgtg acactttac 
      agtggtgct atgcattat ttccgggta ccacggcag 
      tactggaga gatcgtttg cgtaaaatg cgagctgct 
      ggcctaaac actgttgaa acctacatt ccctggaat 
      ttgcacgaa ccgtttaac aatttctac gactttgga 
      aacggtggt agtgacatg gaggagttc ctggacgtc 
      cgccagttc ctgacaatt gcacaggaa gaagatttg 
      tttgcaatc atccggcca ggaccttac atttgttcc 
      gaatgggaa tttggaggg ttccctagt tggttgttg 
      cgttaccac gatattaaa ttacgtact tcagaccca 
      acttatatg aaattcgtg acacggtac tttaaccta 
      ctcctttca ttacttgcc atttttcaa ttcacacgt 
      ggagggccg attatagcg tttcaagtc gaaaatgag 
      tatggcagt accgaacaa cctggcaaa ttcacacct 
      gacaaggtt tacctcaaa cagttacgc caaattatg 
      ctaaataac ggaatagtc gagttgttg gtaacgtca 
      gatagccca acacttcat ggtactgct ggtacctta 
      cctgagtac ttcctccaa acggcaaac ttcgcctct 
      gatcccgaa accgaattt gacaaactt aaacaattg 
      caaaagaat cgaccaacc atggctatg gaattctgg 
      actgggtgg ttcgaccat tggtccgaa aaacaccac 
      acaagggat aatagcgat ttttacgac gtttttgac 
      cgaattttg aagtaccca gcttcggtc aacatgtac 
      atgtttcat ggtggtact aactggggg ttttacaac 
      ggtgccaac ttaaataac gacgctatg gacaactct 
      gggtaccaa ccagacacc acaagttac gattatgac 
      gccccattg tccgaaaat ggtgattat accgaaaag 
      taccacatt gttaaacaa ttaattggg aagtacagt 
      caagtcaag acacgggta ccacaacca ccagctggc 
      acacctagt cataagtac ccaacggta ccaattatt 
      gggcaattg ctattggat gaattgatc aaattggta 
      ccagtgacg ttccaaaat cgggtacca ctaccaatg 
      gagttgctc ccgttaaat aattactcg gggcagagt 
      tacggttat gtggtttat cgtaaagtg aatgtgaca 
      ataccggca aatgccact ctacgtatc acaggccac 
      gtgtgcgac acggtcaca gtcctagtt gatgggttc 
      ctactgaac aaaccattg aaaaaatcg cgtgatttg 
      gaccacttt ggttattgg cgtctcaaa aactccaca 
      attacgctc agtacccaa aacttgacc ggtgccact 
      ttggacctg atggtggaa aattggggc cgaaacaat 
      ttcggacat ttggaacag tttaaccag ttcaagggt 
      ttatggcaa ggtggtgtg tttttaaac gatgaagaa 
      ttgctcaat tggcaaatt ataccattg gagtttcgc 
      aagaaatgg tcaatgggt ttgaatggt tggcatggg 
      acgtaccaa cgatgggca cctggtccg gccctttac 
      cgtgcgatt ttaaccgtt gaagtaccg caagacacg 
      tttattgac atggaaaag tgggttaag ggcattgtt 
      atagtcaat gggtttgtt ttagggcgg tttgcaagg 
      atcgggccg caacaaacg ttgtacctt cctgggccc 
      tttttaaaa aaagggaac aacacgatt ttggtgttt 
      gatcatttt gcacgaggt catgaagtg agtttttca 
      caaacagcc aagtataaa acaaggggc aaatttaat 
      ttttggtaa tcaataaac aaaaaaacc gttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY