Status
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Gene information
General information
TC001706 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_007416.3: 7929010..7931227
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
    TC001706
    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
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    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
    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
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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03236

    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


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC001706 RA
      MPKKKPVPV EDLIIPPQD TRICGTICL CQMTLVLSS 
      VAIVYLTVA IYVPSTRAL KSGISEDPV MCTTTRAVQ 
      VEACDWGSC GEWCLSKTS GACMQIYVN LRHNGSNLL 
      LANCTNTAN KTCYGIDQE NAKKSRCIA DDCKNLTGT 
      FNCTTGMCI NITDAFECI FKDTDPPLK CSGRRGKIT 
      CIDLNGLYS CNRGTCERI RTPYNCDRR CVDIPTRNK 
      NVILLSGDK VYLSQCQRA IDLDSGEEV WNESQDNIM 
      MSSCYNILN TTRGVVAID CVNGSLLPN NVLNDLTNF 
      TYLSYLSVF NTVPLDEKR IIAPPEPDL LIANESKLL 
      INLEGCVNT LRDECKEFL RVYGKDGTD HNARARFPC 
      FYSNDNPGV VVARFDLAT TTKQFLIAS VLPTVLFVV 
      SCLTLILCQ RTVVVGDDA KMRFQSCVA GDGETIEKT 
      TSANNMTDR GGGNSIMAL
    CDS sequence
    • >TC001706 RA
      atgccgaaa aagaagcca gtgccggtc gaagacctc 
      attatccct ccacaagac actcgaata tgtggaacg 
      atttgttta tgtcaaatg actctagtt ctaagtagt 
      gtagctatt gtttatctg accgtggcg atttatgtt 
      ccctcgact cgtgctctc aaatcgggg atttcggaa 
      gatccggtt atgtgcaca acaacacga gccgttcag 
      gtagaagcg tgtgactgg ggatcgtgt ggggaatgg 
      tgtcttagc aaaacatcc ggagcttgc atgcaaatc 
      tacgtcaat cttagacac aacgggtct aatctactt 
      ttagcaaat tgcacaaac acagccaat aaaacgtgc 
      tacggcatt gaccaagag aatgccaag aagagtcgt 
      tgtatagcc gacgactgt aaaaatttg acaggcaca 
      ttcaattgt accactggt atgtgtatc aatataacc 
      gatgcgttc gaatgtatc ttcaaagat acggaccca 
      cctctgaaa tgttcaggc cgaagaggc aaaatcact 
      tgtatcgat ttaaacggt ttatatagt tgtaaccga 
      ggaacgtgc gaacgtatt cgcacccct tacaattgt 
      gacagacga tgcgttgat atcccgacc cgcaacaaa 
      aacgtgata ttactaagt ggtgacaaa gtctatctg 
      tcgcaatgt caacgtgcg attgactta gacagcgga 
      gaggaggtc tggaacgaa tcccaagac aacatcatg 
      atgtcctct tgctacaac atcctcaac accacccga 
      ggagtggtc gcaatcgac tgcgtcaac ggctccctc 
      ctcccaaac aacgttcta aacgacctg accaacttc 
      acctacctg agttacctc agtgtgttt aacaccgtc 
      cctttggac gagaaacgc ataatagcc ccccctgag 
      cccgacctg ctaatcgcc aacgagagc aaactcctc 
      atcaacctt gaaggctgt gtcaacacg ttgcgagac 
      gaatgcaag gagttcctc cgcgtgtac ggcaaggac 
      ggcaccgac cacaacgcc cgcgcccgc ttcccgtgc 
      ttttactcg aacgacaac cccggggtt gtcgtcgcg 
      cgattcgac ttagccaca accaccaaa caattcctg 
      atcgcgtcc gtcttgccc acggtcctt ttcgtcgtc 
      tcctgcctc accctcatt ctatgtcaa cgcaccgtt 
      gtcgtcgga gacgatgct aaaatgcgg tttcagagc 
      tgcgttgcc ggagacggg gagaccatc gagaagaca 
      acttcggcc aacaacatg acggatcga ggaggaggg 
      aactcgatt atggcgctt tga
    mRNA sequence
    • >TC001706 RA
      cgaccatga agtgttgct aaccgatca tgttctaaa 
      ggcaaaatg ccgaaaaag aagccagtg ccggtcgaa 
      gacctcatt atccctcca caagacact cgaatatgt 
      ggaacgatt tgtttatgt caaatgact ctagttcta 
      agtagtgta gctattgtt tatctgacc gtggcgatt 
      tatgttccc tcgactcgt gctctcaaa tcggggatt 
      tcggaagat ccggttatg tgcacaaca acacgagcc 
      gttcaggta gaagcgtgt gactgggga tcgtgtggg 
      gaatggtgt cttagcaaa acatccgga gcttgcatg 
      caaatctac gtcaatctt agacacaac gggtctaat 
      ctactttta gcaaattgc acaaacaca gccaataaa 
      acgtgctac ggcattgac caagagaat gccaagaag 
      agtcgttgt atagccgac gactgtaaa aatttgaca 
      ggcacattc aattgtacc actggtatg tgtatcaat 
      ataaccgat gcgttcgaa tgtatcttc aaagatacg 
      gacccacct ctgaaatgt tcaggccga agaggcaaa 
      atcacttgt atcgattta aacggttta tatagttgt 
      aaccgagga acgtgcgaa cgtattcgc accccttac 
      aattgtgac agacgatgc gttgatatc ccgacccgc 
      aacaaaaac gtgatatta ctaagtggt gacaaagtc 
      tatctgtcg caatgtcaa cgtgcgatt gacttagac 
      agcggagag gaggtctgg aacgaatcc caagacaac 
      atcatgatg tcctcttgc tacaacatc ctcaacacc 
      acccgagga gtggtcgca atcgactgc gtcaacggc 
      tccctcctc ccaaacaac gttctaaac gacctgacc 
      aacttcacc tacctgagt tacctcagt gtgtttaac 
      accgtccct ttggacgag aaacgcata atagccccc 
      cctgagccc gacctgcta atcgccaac gagagcaaa 
      ctcctcatc aaccttgaa ggctgtgtc aacacgttg 
      cgagacgaa tgcaaggag ttcctccgc gtgtacggc 
      aaggacggc accgaccac aacgcccgc gcccgcttc 
      ccgtgcttt tactcgaac gacaacccc ggggttgtc 
      gtcgcgcga ttcgactta gccacaacc accaaacaa 
      ttcctgatc gcgtccgtc ttgcccacg gtccttttc 
      gtcgtctcc tgcctcacc ctcattcta tgtcaacgc 
      accgttgtc gtcggagac gatgctaaa atgcggttt 
      cagagctgc gttgccgga gacggggag accatcgag 
      aagacaact tcggccaac aacatgacg gatcgagga 
      ggagggaac tcgattatg gcgctttga gatcaatca 
      cgtacgttg gggccctgg ggctcgctg aaaccagca 
      caggcaaaa ggctggttt cagggagat gggggcttg 
      ttggttagt tggggtgtt tcaggcatt cccctgctg 
      ctagaccga gactgaggg ggaaagcgt tttgggaac 
      catgagtga ggacaaaaa accgctgac gctcatctc 
      aattgcaga aactgcaaa gttttatac atcgttatg 
      tcttggaat cactgcttt tatctcagt atttgcatt 
      tctctttct tataccttt tattgtcga tccggcgat 
      cacgagttt gatggcgga ctacgagcc agagccggt 
      gacttgtgt ggggactca gcatgtgta cgctgaggg 
      gttgacgaa ctgttcgtg ggcctcgtg ccgcgaagg 
      gtgtacgag agaggccac gcgttgcca ccaaatcta 
      cgttaatta ctccaaaat tcccttcag agattggaa 
      accggcgct aaacgtcca gtgggacgt cgtcgatac 
      taggttctt gattaacgc ggaaggatg tggttatcc 
      tccttctgt caattgtac cgagtttgc acgacagta 
      tgggtacag cacagcagg caccccttt tccttgtta 
      ttatagcag agtatatcc cgatatcgt agtcgcaag 
      gtactcatg ggacgaaac attgaaaca tttaatact 
      ttcgattac catacctaa cttgctatt cgccgcatc 
      tgttggagt tcttagcta ctggtactg cccaggctg 
      tggcaagac ttgcaacaa atacatgca tcactttcc 
      tgccgagta agttaatag caca
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY