Status
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Gene information
General information
TC001708 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: 7931420..7935693
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
    TC001708
    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
    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_09450

    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: 50.0% (includes death as pupa, adult)

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 4 (9 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
    • >TC001708 RA
      MGRRNKCKP RMIPQQDKR ICGCICFCQ LVVVFSCVS 
      LIYLTVAIY IPSYRAFHS GFEERPVMC QTVNTSMLN 
      NCSWASCGE WCLTKTSGF CPQIHATTR QNGTTIQLQ 
      NCTNFRTSH CPPVNANDL KKHNCNNGT ECSSLKGVF 
      NCSLGHCTN VSQIYECHY RADGFTVDS DKDNAKLNG 
      IFECKGSKC TKIKRGFSC DRICKENIT SVGKNVFIT 
      SGNKVYQAS CESAVASTI ANGNEEGNE IEPTQFWTR 
      KNEEVFMVS CHTIRYNID EHYINASDC INGTLYNSE 
      DLPSPFMTF KEFWNLTGR WKAVLDPQE KYVPMQSAL 
      TIYNTSRLY INLDGCVNT LKGECLDFL NSHGSDGKN 
      QTAQSRYPC FYNKNNSFM VIARYDLKR TWRDLIIAI 
      SIPSVLFVV SFITLCVIM QSVRVDDDT KMRCKYCFV 
      KDNSDLTEM ITANSKYEV SSPESDGPS RREVLG
    CDS sequence
    • >TC001708 RA
      atgggccgc cgaaacaaa tgtaagccc cgtatgatc 
      ccccaacag gacaaacga atctgcggc tgtatctgc 
      ttttgccaa ttggttgtc gtatttagt tgcgtatcg 
      cttatttat ttaacggtg gccatttat attccttcc 
      tatagagcg ttccattcc ggttttgaa gagcggcct 
      gtcatgtgc caaactgta aatacgagt atgctcaac 
      aattgcagc tgggcctcg tgtggcgag tggtgtctc 
      acgaaaacc tcgggcttt tgcccgcaa attcacgca 
      acgacgagg caaaacggc actacgata caactccaa 
      aactgtacc aatttccgg acctcgcat tgcccgccc 
      gttaacgcc aacgatctg aaaaaacac aactgcaac 
      aacggaacg gagtgcagc tccctgaag ggggttttc 
      aactgctcc ttgggacat tgcaccaac gtgtcgcaa 
      atttacgag tgtcattac cgggccgac ggcttcacc 
      gtcgatagc gacaaggac aacgcgaag cttaacggg 
      attttcgaa tgcaaaggc tccaagtgc accaaaatc 
      aagcggggc ttcagctgc gaccgcatt tgcaaggaa 
      aacataact tcagtaggg aaaaacgta ttcatcacg 
      tcgggaaac aaggtctac caagcttcc tgcgagtca 
      gccgtagcc tcgaccatc gctaacggg aacgaagaa 
      gggaacgaa atcgaaccg acgcagttt tggacgcgg 
      aaaaacgaa gaagtcttt atggtctct tgtcacacg 
      attcgatac aacattgat gagcactac ataaacgcg 
      agtgattgt atcaacgga actttgtac aacagcgag 
      gaccttcca tcccccttt atgactttc aaggagttc 
      tggaacctg actggtcgc tggaaggcg gttctggac 
      ccccaagaa aaatacgtc cccatgcaa agtgccctc 
      acgatttac aacacctcc cgcctttac ataaacctg 
      gacggttgc gttaatact ttaaaaggg gagtgttta 
      gacttcctc aattcccat ggaagcgat ggcaagaac 
      caaacggcg cagtcacgc tatccatgc ttctataac 
      aagaacaac tcctttatg gtaatcgct cggtacgac 
      ttgaaacgg acttggagg gatctcata attgcgatc 
      agtatcccg tctgtcctt tttgttgtt tctttcatt 
      acgttgtgt gtcattatg cagtcggtg cgggttgac 
      gatgacacc aaaatgagg tgtaaatat tgcttcgtc 
      aaggataat tccgacttg actgaaatg ataacggcc 
      aatagtaag tacgaggtc tcctcgcct gagtcagat 
      gggccttcg agaagggag gttttgggt taa
    mRNA sequence
    • >TC001708 RA
      caaaactta tgttgaaaa caggtggat gaagactac 
      gacgaaaac tcatattag cacagctag cagccctcc 
      aagatttcg tcacgctcg cttcgcaac aattctatt 
      tgatacaat cataatttt tataaatcg ttgttaacg 
      caactatta cgtaaatta aatcccagt tgataccaa 
      taacaaagt gtagacttt taattaaaa tgacatata 
      tttcaattt aaaataagt acaaagatg tgaataaat 
      aataaccga ttgagcgtg tttttgctg ttcctcccc 
      ttggcattt aaaaatcca atacctggg gcaatttcc 
      ctcgagggc gagggcgac gcttgcgcc ccgacgctt 
      gacgtcgat cgcctcctt agttaactt ccgtcatgt 
      agtgaagta caacgttaa ttaccccga ggtgccttt 
      aactgtcaa aaatgggcc gccgaaaca aatgtaagc 
      cccgtatga tcccccaac aggacaaac gaatctgcg 
      gctgtatct gcttttgcc aattggttg tcgtattta 
      gttgcgtat cgcttattt atttaacgg tggccattt 
      atattcctt cctatagag cgttccatt ccggttttg 
      aagagcggc ctgtcatgt gccaaactg taaatacga 
      gtatgctca acaattgca gctgggcct cgtgtggcg 
      agtggtgtc tcacgaaaa cctcgggct tttgcccgc 
      aaattcacg caacgacga ggcaaaacg gcactacga 
      tacaactcc aaaactgta ccaatttcc ggacctcgc 
      attgcccgc ccgttaacg ccaacgatc tgaaaaaac 
      acaactgca acaacggaa cggagtgca gctccctga 
      agggggttt tcaactgct ccttgggac attgcacca 
      acgtgtcgc aaatttacg agtgtcatt accgggccg 
      acggcttca ccgtcgata gcgacaagg acaacgcga 
      agcttaacg ggattttcg aatgcaaag gctccaagt 
      gcaccaaaa tcaagcggg gcttcagct gcgaccgca 
      tttgcaagg aaaacataa cttcagtag ggaaaaacg 
      tattcatca cgtcgggaa acaaggtct accaagctt 
      cctgcgagt cagccgtag cctcgacca tcgctaacg 
      ggaacgaag aagggaacg aaatcgaac cgacgcagt 
      tttggacgc ggaaaaacg aagaagtct ttatggtct 
      cttgtcaca cgattcgat acaacattg atgagcact 
      acataaacg cgagtgatt gtatcaacg gaactttgt 
      acaacagcg aggaccttc catccccct ttatgactt 
      tcaaggagt tctggaacc tgactggtc gctggaagg 
      cggttctgg acccccaag aaaaatacg tccccatgc 
      aaagtgccc tcacgattt acaacacct cccgccttt 
      acataaacc tggacggtt gcgttaata ctttaaaag 
      gggagtgtt tagacttcc tcaattccc atggaagcg 
      atggcaaga accaaacgg cgcagtcac gctatccat 
      gcttctata acaagaaca actccttta tggtaatcg 
      ctcggtacg acttgaaac ggacttgga gggatctca 
      taattgcga tcagtatcc cgtctgtcc tttttgttg 
      tttctttca ttacgttgt gtgtcatta tgcagtcgg 
      tgcgggttg acgatgaca ccaaaatga ggtgtaaat 
      attgcttcg tcaaggata attccgact tgactgaaa 
      tgataacgg ccaatagta agtacgagg tctcctcgc 
      ctgagtcag atgggcctt cgagaaggg aggttttgg 
      gttaaattt tgttgccat tgctgtctg tgaccaaca 
      tagttatcg tagctacaa gcagtgtat aatatgtgc 
      cttgtgcaa ccgtgtatg ccgcacgtt gggtgattc 
      gctaaacgt cccgaggat ttttagctg atccactct 
      gtataccta tcgttgttg ttatacaca ttcactaag 
      tgttattct cgtcatata gatatatgt atatttaac 
      agttaatgt ttgtcgatt tataaaata tttacaagt 
      tgttactat aagaactgc gagcttatg aacaatgtt 
      tcaattatt cgaataacc gactataat cgcttattg 
      ctcaccaat ctatgtgat cagcacctt ttctttcag 
      tttcattaa cattgactg acatgaaca cttcctcac 
      taagcgaaa cgatggaaa agtagacca attaaccct 
      atccttgaa cacaaatct aaaaatatt ttcgacaac 
      accgttttg ttgctcatc tcttctctt caaaataaa 
      ttagagtgt aatcaaaac catggcctc caaattgaa 
      atgaccaaa tattttttc gatacgacg ttttcatat 
      ttctaggta tatacgacg tggtccaaa ttgtagaaa 
      gagtaggac tttgttcac aaaacaatt attattgct 
      cgcgattct aaactcgaa aatcatatc ttttagcta 
      aaaaattac gtaggcatt agcgccacc gaaagccaa 
      gggacactt aattagaaa agagccttg ttctttcaa 
      cggagtgtt agaaaaatc accaagtgc caaaattcc 
      gaaaatttg gacaaaata tcaaaacac agcagtaat 
      aattgtttt ccggtgcat atgtttacg attacaata 
      ttctaaaat tgtgctaca tatgttgaa acattgtat 
      ttatgtaat tggtgttaa taaatgatt tttaattta
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY