Status
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Gene information
General information
TC006662 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: 12658438..12660962
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
    TC006662
    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
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    Name
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    Email
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    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01075

    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: 2 (3 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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): 50% - 80%
    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006662 RA
      MENGENLHF RQPSNLKGD KQNIALLLC LYTLQGIPL 
      GLSSAIPMI LQNRGVSYK QQAEFSFVT WPFSLKLLW 
      APLVDSIFS TRVGRRKTW LIPTQYLIG AFMLLLSGH 
      VDQWLGGEA LAPNIEILT LLFFSLNFL AATQDIAVD 
      GWALTMLKK QNVGHASTC NSVGQTAGF FLSYVVFMA 
      LESPSFCNM YLRAEPRDT GIVTLQGFL YFWGWVFIL 
      STTLVAVFK KESEARGGQ NEVVVHDRD IQTAYKSLK 
      DILALRPIQ TLVLILLTC KIGFSSTDS VMTLKLVEA 
      GVPKERLGL MAIPLIPVQ LALPLVIAK YTTGPRPLD 
      IFLKAIPYR LLFGFVAAF LVWVTPVLV PDGSQGLPF 
      LYVVFLVIC YALHQVCVY CMFVSIMAF FAKISDSSV 
      GGTYMTLLN TVTNLGGNW PAMLALYFV DPLTWKQCM 
      GGAESLDNT CRNSVEKEL CVSKGGKCV TVLDGFYIE 
      TVICAVIGF SWLVWGRKK INYVQSLDD YAWKLTKRK 
      R
    CDS sequence
    • >TC006662 RA
      atggaaaac ggcgaaaat ttgcatttc cgccaaccc 
      tcaaacctg aagggcgat aagcaaaac atcgccctt 
      cttttgtgt ctctacacc cttcagggc atccctttg 
      gggctcagt tcggccatt ccgatgatc ctccaaaac 
      cggggagtg agctacaag caacaggcc gaatttagt 
      ttcgtaact tggccgttt agtttaaag ttactgtgg 
      gcccccttg gtcgattcg attttctcc acacgagtt 
      ggccgccgg aaaacgtgg ctcataccg acgcagtat 
      ttaattggg gcgtttatg ctcctgttg agcgggcac 
      gtggaccaa tggctgggg ggcgaagcc ctggcgccc 
      aatattgaa atattgacg cttttattc ttctctctg 
      aattttcta gccgccaca caggatatt gccgttgat 
      gggtgggcc ttaacaatg ttgaaaaaa caaaacgtg 
      gggcacgcc tccacttgt aacagtgtg gggcaaact 
      gccgggttt tttctaagt tatgtggtt tttatggcg 
      ttagaatcg cccagtttt tgcaatatg tacttaagg 
      gcggagccc cgggacaca gggattgtg accttgcaa 
      gggtttttg tatttctgg gggtgggtt tttattttg 
      agtacgacc ttagtggcc gtttttaag aaggaaagt 
      gaggctaga ggtgggcaa aacgaggtt gtagtgcat 
      gatagagac atacaaacg gcctacaag agtctcaaa 
      gacatacta gcgctgcgc cccatccaa actttggtg 
      ctgattctg ctgacgtgc aagattggc ttttcgtca 
      actgacagc gtgatgacc ttgaagctg gtggaagcg 
      ggggttccc aaagagcgt ctaggtctc atggccatc 
      ccccttatt cccgtccaa ctcgccctc ccccttgta 
      atcgcaaaa tacacgact ggtccgcgc ccccttgat 
      attttcctc aaggccatt ccgtaccgt cttttgttc 
      ggtttcgtg gccgccttt ctggtttgg gtgacgcct 
      gttttggtc ccggatggc tctcaaggc ttgcctttc 
      ctctacgtg gtgttttta gtcatttgt tacgccttg 
      catcaagtg tgcgtctac tgtatgttt gtttcaatc 
      atggccttc tttgccaaa atcagcgac agttcagtg 
      gggggcacc tacatgacg ctgttaaat acagtgact 
      aacttaggg gggaactgg cccgcgatg ttggcactg 
      tattttgtg gaccccctc acgtggaag caatgtatg 
      ggaggggcc gaaagtttg gataatacg tgccgaaat 
      tcggtcgaa aaagagttg tgtgtgagt aaagggggg 
      aagtgcgtt acggtcctg gacggcttt tacatcgaa 
      accgtgatt tgcgcggtc ataggcttc agttggttg 
      gtttggggc cgcaaaaaa attaattac gtccagtcg 
      cttgacgac tacgcgtgg aagctgacc aagaggaag 
      agatag
    mRNA sequence
    • >TC006662 RA
      tgacagttc aaaatattt tgagtggac gtgttactt 
      ttttgcaaa tttgaatga attgtaaag gctatttca 
      ccttgaaat catcgtaac catttgtta aatcaatga 
      cgtggcttt aacctaacc tcaaaaaac aaaatatgg 
      aaagaaaac gtgtaaaaa accagcccc agcacgatt 
      ccacgatgg aaaacggcg aaaatttgc atttccgcc 
      aaccctcaa acctgaagg gcgataagc aaaacatcg 
      cccttcttt tgtgtctct acacccttc agggcatcc 
      ctttggggc tcagttcgg ccattccga tgatcctcc 
      aaaaccggg gagtgagct acaagcaac aggccgaat 
      ttagtttcg taacttggc cgtttagtt taaagttac 
      tgtgggccc ccttggtcg attcgattt tctccacac 
      gagttggcc gccggaaaa cgtggctca taccgacgc 
      agtatttaa ttggggcgt ttatgctcc tgttgagcg 
      ggcacgtgg accaatggc tggggggcg aagccctgg 
      cgcccaata ttgaaatat tgacgcttt tattcttct 
      ctctgaatt ttctagccg ccacacagg atattgccg 
      ttgatgggt gggccttaa caatgttga aaaaacaaa 
      acgtggggc acgcctcca cttgtaaca gtgtggggc 
      aaactgccg ggttttttc taagttatg tggttttta 
      tggcgttag aatcgccca gtttttgca atatgtact 
      taagggcgg agccccggg acacaggga ttgtgacct 
      tgcaagggt ttttgtatt tctgggggt gggttttta 
      ttttgagta cgaccttag tggccgttt ttaagaagg 
      aaagtgagg ctagaggtg ggcaaaacg aggttgtag 
      tgcatgata gagacatac aaacggcct acaagagtc 
      tcaaagaca tactagcgc tgcgcccca tccaaactt 
      tggtgctga ttctgctga cgtgcaaga ttggctttt 
      cgtcaactg acagcgtga tgaccttga agctggtgg 
      aagcggggg ttcccaaag agcgtctag gtctcatgg 
      ccatccccc ttattcccg tccaactcg ccctccccc 
      ttgtaatcg caaaataca cgactggtc cgcgccccc 
      ttgatattt tcctcaagg ccattccgt accgtcttt 
      tgttcggtt tcgtggccg cctttctgg tttgggtga 
      cgcctgttt tggtcccgg atggctctc aaggcttgc 
      ctttcctct acgtggtgt ttttagtca tttgttacg 
      ccttgcatc aagtgtgcg tctactgta tgtttgttt 
      caatcatgg ccttctttg ccaaaatca gcgacagtt 
      cagtggggg gcacctaca tgacgctgt taaatacag 
      tgactaact tagggggga actggcccg cgatgttgg 
      cactgtatt ttgtggacc ccctcacgt ggaagcaat 
      gtatgggag gggccgaaa gtttggata atacgtgcc 
      gaaattcgg tcgaaaaag agttgtgtg tgagtaaag 
      gggggaagt gcgttacgg tcctggacg gcttttaca 
      tcgaaaccg tgatttgcg cggtcatag gcttcagtt 
      ggttggttt ggggccgca aaaaaatta attacgtcc 
      agtcgcttg acgactacg cgtggaagc tgaccaaga 
      ggaagagat agtgatttt tgtgtttcc gagctggca 
      ctgtttgtt atttagctc aaaaatagt cgatttatt 
      tttgttgag tgtgtaaaa attttgcac ttttttatt 
      ataattatt gttaattta acgagcgca gattgtgat 
      ataggaacg ggagtgctc aagcttccg actaataga 
      tggcgccgt ctactttga aattttaat tttttgtat 
      ttccctcaa aaccaagga caatatcgc atggtgtgt 
      gatttttga aacacgaaa taaaattaa ttttagtaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY