Status
Please wait ...
Gene information
General information
TC005345 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_007423.3: 14244691..14246828
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
    TC005345
    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_00832

    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)

    Adult morphology
    behaviour irregular - Number of animals showing the phenotype: 10 (13 dpi)
    Days post injection


    Comment: females crawl on the wall; even after put to the ground they hurry to the wall of the well and walk along the lower part of it. Picture: left Phenotype (femals at the wall; some males on the bottom); right & bottom WT

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larva cuticularisation decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection


    Pupal morphology
    maxillary palp elongated - Number of animals showing the phenotype: 6

    Comment: Maxillary palps has 5 segments instead of three.
    antenna orientation irregular - Number of animals showing the phenotype: 6

    head orientation bent - Number of animals showing the phenotype: 6
    mandible size broader - Number of animals showing the phenotype: 6
    Comment: The distance between the mandibles is increased!
    labrum size decreased - Number of animals showing the phenotype: 6
    labium not present - Number of animals showing the phenotype: 6
    elytra size decreased - Number of animals showing the phenotype: 6

    legs shape irregular - Number of animals showing the phenotype: 6

    legs tarsus necrotic - Number of animals showing the phenotype: 6

    female genital lobes not present - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005345 RA
      MPGTILENL SGRKLSVLV AILFFSQLG CFLVGLIAP 
      KPANSQGIL ATVCHNNKT AAKDMNYWV TRNCERIDL 
      NHVEPGLTA DDIVFVLQM PLSPEMDFS RWQQNLVGI 
      LQFDLLYQK GLNPVDFIV ELTIDARLA FSDKKRTGG 
      RTPWTYYAH SEEKRYMDC NIDLKNIKD PEGYPYNCS 
      MVPLFELGS LYHDYYLLN IRLPYNEQQ MKNVDLRKI 
      QDVYLHLIH MNGGFTQVW VSLKTFFFP IIIGIMVWF 
      WRRVHLLSR TPALLEYML ISLGGTLAF LDLPLEYLT 
      LWFEMPYML LLSDIRQGI FYAMLLSFW LVFAGEHML 
      IQDNGEKNS IKLYWKHLS TIVTGCLSL LVFDLCERG 
      IQLVNPFYS IWVTPVGTN LALSFIILA GISASMYFI 
      FLCYMIWRV FKNISIKRS VLPSMSQAR RLHYEGIIY 
      RFNFLMLAT VICAAVTVI SFILSQVAE GQNKWDENM 
      ELELSSALH TGVYGMWNV YICAMLMLY APSHKQWPA 
      EPICTEGEE VEFSRLPTD PTPNEISSL TSFASKASI 
      E
    CDS sequence
    • >TC005345 RA
      atgccggga acaatcctc gagaacctc agcggccgt 
      aaattgagc gttttagtg gctattctg tttttcagc 
      caattggga tgcttcctt gtcggcttg atagccccc 
      aaaccggca aactcgcaa gggatcctt gctacagtg 
      tgccacaac aacaaaaca gccgccaaa gacatgaac 
      tactgggtc actcgcaat tgcgagcga attgatttg 
      aaccacgtc gagccgggg ctcacagct gacgatatt 
      gtttttgtc ctccaaatg ccgctctcg cccgagatg 
      gacttctcc cgctggcag cagaaccta gtggggatc 
      ctccagttc gatttattg taccagaag ggtttaaat 
      ccagttgac ttcatcgtg gagctcaca atcgacgcc 
      cgcttggct tttagcgac aagaagcgg actgggggg 
      cgcacccct tggacgtac tacgcccac tcggaggaa 
      aagcgctac atggactgc aacatcgac ttaaaaaac 
      atcaaggat cccgagggg tacccttac aattgttca 
      atggtgccg ttatttgag ctcggctcg ttgtaccat 
      gactactac cttctgaac attcggtta ccgtacaac 
      gagcagcag atgaaaaac gtcgatttg cgtaagata 
      caagacgtt tacttgcac ttgattcac atgaacggg 
      ggttttacc caagtttgg gtgtcgctt aagacgttt 
      ttcttcccg attatcatc gggataatg gtttggttc 
      tggcgaagg gtgcatttg ctgtcacgc acgcctgcc 
      ttgctcgaa tatatgttg atttcgtta ggcggtact 
      ctggccttc ctggacctt ccgctcgaa tatttgacc 
      ctttggttc gaaatgccc tacatgctg ttacttagc 
      gacatccga cagggcatt ttctacgcc atgttgctc 
      tctttctgg ctcgtgttc gccggtgaa cacatgctc 
      attcaagac aatggcgaa aagaacagc atcaagttg 
      tattggaaa cacttgagt actattgtg actggttgc 
      ttgtctttg ctcgttttt gacttgtgt gagcgtggc 
      atccaactt gtgaacccg ttttattcc atttgggtg 
      actccagtt ggtaccaac cttgccctt tctttcata 
      atcctagct gggatttcc gctagtatg tactttatt 
      ttcctttgc tacatgatt tggcgcgtc ttcaaaaac 
      ataagtata aagcgttcg gttctaccc agcatgtcg 
      caagcccga cgattgcac tacgaaggt ataatctac 
      cggtttaat ttcctcatg ttggcaaca gtgatttgt 
      gctgcggtt accgtaatc tcgttcatt ttgagtcaa 
      gtggccgaa ggccaaaac aaatgggac gaaaacatg 
      gaacttgag ctctcttca gcgcttcat actggcgtt 
      tacggaatg tggaatgtc tatatttgc gctatgttg 
      atgttgtat gctcctagt cataagcaa tggcccgcg 
      gaaccgatc tgtaccgaa ggcgaggag gttgagttt 
      agtcggctt ccgaccgat ccaactccc aatgaaatc 
      tcttctttg acgtcattt gcttcaaaa gctagtatt 
      gagtaa
    mRNA sequence
    • >TC005345 RA
      cctccacgt ttgtttttg tttgctaat ggcgtgtta 
      gctcaacaa ttcggccaa aaaatccgg tatttcccg 
      tgtaactat cttaaaaca atgccggga acaatcctc 
      gagaacctc agcggccgt aaattgagc gttttagtg 
      gctattctg tttttcagc caattggga tgcttcctt 
      gtcggcttg atagccccc aaaccggca aactcgcaa 
      gggatcctt gctacagtg tgccacaac aacaaaaca 
      gccgccaaa gacatgaac tactgggtc actcgcaat 
      tgcgagcga attgatttg aaccacgtc gagccgggg 
      ctcacagct gacgatatt gtttttgtc ctccaaatg 
      ccgctctcg cccgagatg gacttctcc cgctggcag 
      cagaaccta gtggggatc ctccagttc gatttattg 
      taccagaag ggtttaaat ccagttgac ttcatcgtg 
      gagctcaca atcgacgcc cgcttggct tttagcgac 
      aagaagcgg actgggggg cgcacccct tggacgtac 
      tacgcccac tcggaggaa aagcgctac atggactgc 
      aacatcgac ttaaaaaac atcaaggat cccgagggg 
      tacccttac aattgttca atggtgccg ttatttgag 
      ctcggctcg ttgtaccat gactactac cttctgaac 
      attcggtta ccgtacaac gagcagcag atgaaaaac 
      gtcgatttg cgtaagata caagacgtt tacttgcac 
      ttgattcac atgaacggg ggttttacc caagtttgg 
      gtgtcgctt aagacgttt ttcttcccg attatcatc 
      gggataatg gtttggttc tggcgaagg gtgcatttg 
      ctgtcacgc acgcctgcc ttgctcgaa tatatgttg 
      atttcgtta ggcggtact ctggccttc ctggacctt 
      ccgctcgaa tatttgacc ctttggttc gaaatgccc 
      tacatgctg ttacttagc gacatccga cagggcatt 
      ttctacgcc atgttgctc tctttctgg ctcgtgttc 
      gccggtgaa cacatgctc attcaagac aatggcgaa 
      aagaacagc atcaagttg tattggaaa cacttgagt 
      actattgtg actggttgc ttgtctttg ctcgttttt 
      gacttgtgt gagcgtggc atccaactt gtgaacccg 
      ttttattcc atttgggtg actccagtt ggtaccaac 
      cttgccctt tctttcata atcctagct gggatttcc 
      gctagtatg tactttatt ttcctttgc tacatgatt 
      tggcgcgtc ttcaaaaac ataagtata aagcgttcg 
      gttctaccc agcatgtcg caagcccga cgattgcac 
      tacgaaggt ataatctac cggtttaat ttcctcatg 
      ttggcaaca gtgatttgt gctgcggtt accgtaatc 
      tcgttcatt ttgagtcaa gtggccgaa ggccaaaac 
      aaatgggac gaaaacatg gaacttgag ctctcttca 
      gcgcttcat actggcgtt tacggaatg tggaatgtc 
      tatatttgc gctatgttg atgttgtat gctcctagt 
      cataagcaa tggcccgcg gaaccgatc tgtaccgaa 
      ggcgaggag gttgagttt agtcggctt ccgaccgat 
      ccaactccc aatgaaatc tcttctttg acgtcattt 
      gcttcaaaa gctagtatt gagtaaacc cccgaattg 
      tatcgatgt tttctaact gctgcaagt acttaattc 
      ttcgacttg tgatgcaca cgcacattt ttaatattt 
      attatgctc gatgttttt agaattttt atcgaccct 
      atcacgtaa taaatagtt gacagtatt acgtagcgg 
      gtagtgttg tatatgtga tctttcgat attttaact 
      ctggtgatt tttatatgc cgatcagta ttttctcgc 
      atttactaa taaatatgt atgatatac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY