Status
Please wait ...
Gene information
General information
TC004314 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_007424.3: 1149519..1151842
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
    TC004314
    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_00677

    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)

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection


    Fertility
    egg chamber mostly not present - Number of animals showing the phenotype: 4
    tropharium shape irregular - Number of animals showing the phenotype: 4

    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


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



    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004314 RA
      MSNQEKPVK ISKQLRLKA HEFLSSRKN SEHLLSIVR 
      HFESGADLS SCLLTLELI FTNLLKDRD MYIEVVPLK 
      PIEKTETNQ YKEWLRNLY ENCFSKILE SFENDSNKI 
      QIQGLSTAM NIISYEGKF PLENRGNLE CYVPLNRLK 
      PVLMKLLSN KHNNVHLIN KYTEYLLYS DILFFSWKL 
      LPSLTAKTN PNETYIMNY LRLLEKLEL RKPDEQQTL 
      CGNETGDFF TFDESVPLR ALNKVWHCV MLWEHSPQT 
      HKQLLIVLL ERALPHLEK PLFLTDFLM DSLDVGGPV 
      SLLALQGIF TMIQVHNLN YPNIFAKLY SMFEPEIFH 
      TKYKARLFY LSDLFLSST HLPENLVAA FAKRLARLA 
      LIAPSEDVV IICMFIGNL ILRHPGLKC LLNNPTEGT 
      ASSDPYIME ERDPVKSNA INSSLWELK SLQQHSIPS 
      VATAARFIN SPLPTIEWD LSRILDETG DDIFDKEVK 
      KHGKLIALA FDKSHDQIL HYWNI
    CDS sequence
    • >TC004314 RA
      atgtccaat caggaaaaa ccggtaaaa atctcgaaa 
      caattacgt ttaaaagct cacgagttc ctctcgtct 
      cgtaaaaat tccgaacat ttgctaagt attgtacgt 
      catttcgaa tcgggtgcg gacctgtca tcatgttta 
      ctcactttg gaattgata tttacgaat ttattaaaa 
      gacagggat atgtacata gaagtggtt ccattaaaa 
      cccatcgaa aaaactgaa acgaatcaa tacaaggaa 
      tggttgagg aacttgtat gaaaattgc tttagtaaa 
      attcttgaa tcatttgag aatgactcg aataagatt 
      caaattcag ggtttgtcc actgccatg aatattatt 
      tcctatgaa ggaaaattt cctttggag aatagaggg 
      aatttggag tgctatgta ccactgaat agactaaag 
      cctgttttg atgaaacta ctctcaaac aagcacaat 
      aacgttcat cttataaac aaatacacg gaatatctt 
      ctttatagt gacattctt ttcttttct tggaaactc 
      ttaccgtca ttgacggct aaaactaac ccaaatgaa 
      acgtacata atgaattat ttacgctta cttgaaaaa 
      ctcgaattg cggaaaccc gacgaacag caaacttta 
      tgcggaaat gaaactggt gattttttc acatttgac 
      gaaagcgtt cctctccgt gcgttaaat aaagtgtgg 
      cattgtgtc atgttgtgg gagcacagc ccccaaacc 
      cacaaacaa ctcttgatt gttcttctc gaacgcgcc 
      cttccccac ttggaaaaa ccccttttc ctaactgac 
      tttctcatg gattcgctc gatgtagga ggccctgtt 
      agtttgctc gccctccaa ggaatattc accatgatc 
      caagtccac aatttaaac tatcccaac attttcgct 
      aaattgtac tcaatgttt gaaccggaa atcttccac 
      accaaatat aaggcgcgt cttttctat ttgtctgac 
      ttgtttttg agttccact catctgccg gaaaatctt 
      gttgcggct tttgccaag cgcttggcc cgtttagct 
      ctcattgcg ccctctgaa gacgtcgtc atcatctgc 
      atgtttata gggaatttg attttgaga catccaggc 
      ctcaaatgt ttattgaat aatccaacg gaaggcacc 
      gccagctct gatccatac ataatggaa gaacgcgat 
      ccagtcaag tcaaacgct atcaacagt tctttgtgg 
      gaactgaag agtcttcaa cagcattca ataccaagc 
      gttgcaacg gccgctaga ttcattaat tcacctttg 
      ccgacaatc gaatgggac ttgagtcgg attctggac 
      gaaactgga gatgatatt ttcgataaa gaggtgaaa 
      aaacatgga aaattgatc gcgttggcc tttgacaag 
      tcacatgat caaattcta cactattgg aacatttaa
    mRNA sequence
    • >TC004314 RA
      atgaataat ttataacct ctaattttg agagaaaag 
      acgccgttg gcgttttta tagttttga aacatgtaa 
      tatgtctct gtggtggtg acttgacaa gtaacagtc 
      accaacttg gtaacttga catttaaaa tccccgtcc 
      tgtccgcca taacctcac tttgtcgag aaaaatctg 
      tgatcaaaa agtggtgtt ttcggtcgt ttttaggaa 
      aatgtccaa tcaggaaaa accggtaaa aatctcgaa 
      acaattacg tttaaaagc tcacgagtt cctctcgtc 
      tcgtaaaaa ttccgaaca tttgctaag tattgtacg 
      tcatttcga atcgggtgc ggacctgtc atcatgttt 
      actcacttt ggaattgat atttacgaa tttattaaa 
      agacaggga tatgtacat agaagtggt tccattaaa 
      acccatcga aaaaactga aacgaatca atacaagga 
      atggttgag gaacttgta tgaaaattg ctttagtaa 
      aattcttga atcatttga gaatgactc gaataagat 
      tcaaattca gggtttgtc cactgccat gaatattat 
      ttcctatga aggaaaatt tcctttgga gaatagagg 
      gaatttgga gtgctatgt accactgaa tagactaaa 
      gcctgtttt gatgaaact actctcaaa caagcacaa 
      taacgttca tcttataaa caaatacac ggaatatct 
      tctttatag tgacattct tttcttttc ttggaaact 
      cttaccgtc attgacggc taaaactaa cccaaatga 
      aacgtacat aatgaatta tttacgctt acttgaaaa 
      actcgaatt gcggaaacc cgacgaaca gcaaacttt 
      atgcggaaa tgaaactgg tgatttttt cacatttga 
      cgaaagcgt tcctctccg tgcgttaaa taaagtgtg 
      gcattgtgt catgttgtg ggagcacag cccccaaac 
      ccacaaaca actcttgat tgttcttct cgaacgcgc 
      ccttcccca cttggaaaa acccctttt cctaactga 
      ctttctcat ggattcgct cgatgtagg aggccctgt 
      tagtttgct cgccctcca aggaatatt caccatgat 
      ccaagtcca caatttaaa ctatcccaa cattttcgc 
      taaattgta ctcaatgtt tgaaccgga aatcttcca 
      caccaaata taaggcgcg tcttttcta tttgtctga 
      cttgttttt gagttccac tcatctgcc ggaaaatct 
      tgttgcggc ttttgccaa gcgcttggc ccgtttagc 
      tctcattgc gccctctga agacgtcgt catcatctg 
      catgtttat agggaattt gattttgag acatccagg 
      cctcaaatg tttattgaa taatccaac ggaaggcac 
      cgccagctc tgatccata cataatgga agaacgcga 
      tccagtcaa gtcaaacgc tatcaacag ttctttgtg 
      ggaactgaa gagtcttca acagcattc aataccaag 
      cgttgcaac ggccgctag attcattaa ttcaccttt 
      gccgacaat cgaatggga cttgagtcg gattctgga 
      cgaaactgg agatgatat tttcgataa agaggtgaa 
      aaaacatgg aaaattgat cgcgttggc ctttgacaa 
      gtcacatga tcaaattct acactattg gaacattta 
      attacgaga ctggatcaa ggtaatagt cacatgtac 
      ggaattatt caaaataat tgattttga atgattctg 
      tatagatat tttattgtg ataaggaac gggcgtgcc 
      ttgaccatt atttgcgtc aggacatat ctacaatgt 
      gttgcggat ttccaccgt ttaaatcac acgcattgt 
      tgctgtgta acatttgtt acctagcta acaatcggc 
      attggtgtg tgtattcat catttcagc ttacaccat 
      catgtattt tttattgac ttttgatta aaaaataca 
      actcattaa tttatccaa ttgaaaggt gatttttca 
      atgcctaaa gtaatgttg aaaataaca aaaaaaaaa 
      catcgctgt gttattttt tatgtatta atactttag 
      aatagtatt tcttaatgt gtattgtta tttctaatt 
      tttgatgtt gaataaaat gttgctttt ttc
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY