Status
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Gene information
General information
TC004622 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: 6384277..6388918
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
    TC004622
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07544

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection


    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): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    legs pretarsus shape broader - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    Comment: Pretarsus potentially not bent
    affected eggs/embryos/larvae - 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: % (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
    • >TC004622 RA
      MFRTARFAL VLLCSALAG AQDDSLAGS FLSGLLDTI 
      TSTADAKDC PGVCVHALA TIICYDVLE DVVCPSSSM 
      KCCVEPPAP NSTEKAPPQ TTTPNQTTS TTITTTTVE 
      KTTTSTTIA PTTTNTSNQ IASDDKIKR KNSNSSKEE 
      PASAKACPG VCVAERIAD YCEAILTTE DLCKPSLKC 
      CVSSDAFGD KIPPNLIIP NKTKSNYTR TEVRTTPKP 
      STTTMRTLP SQEKHPALK QPPKPCRGE CVSGFFALF 
      CDDIDSEAE CPAEGSCCI TSPSEKTIT TTSPRPTTP 
      DPGPRCPGF CLLTIMAAF CERPSVLIP HTSNCKRGS 
      VCCDNTRAA ITLARPKPR PHQPPITTT TTTADPRSE 
      CPGSCIVSY LSFTCFRNA EMTELFKCR KSGTKCCAP 
      KSLIKEALG QKEESTHKE STQVSVDHT TVSVPEASQ 
      ALEPTKVLS TTAKPPIYS KYVCGVKGT SRAGRVVGG 
      EDGEQAEWC WQVALINSL NQYLCGAAL IGTQWVLTA 
      AHCVTNIVR SGDAIYVRV GDHDLTRKY GSPGAQTLR 
      VATTYIHHN HNSQTLDND IALLKLHGQ AELKEGVCL 
      VCLPARGVS HAAGKRCTV TGYGYMGEA GPIPLRVRE 
      AEIPIVSDA ECIRKVNAV TEKIFILPA SSFCAGGEE 
      GNDACQVLS FYQIFK
    CDS sequence
    • >TC004622 RA
      atgtttagg accgccaga tttgctctt gtgcttttg 
      tgtagtgca cttgcagga gctcaagat gactccctc 
      gcaggaagc tttctttca ggccttttg gacacaatt 
      acaagcact gccgatgca aaagattgc ccaggcgta 
      tgcgttcat gctttagcc acaataatc tgctacgac 
      gtcttagag gacgtcgta tgtccatca tcatcaatg 
      aaatgctgt gtggaacct cccgcaccc aactcaact 
      gagaaagct ccaccacaa accacaaca cccaatcaa 
      acaacatcc acaacaatc acgacaaca acagttgaa 
      aaaacaaca actagtaca acaattgca ccaacaacg 
      accaatacc tcaaatcag atagcctcc gacgataaa 
      ataaaacgc aaaaactcc aatagcagc aaagaagaa 
      cctgcgtcg gccaaagcc tgtcccggt gtatgtgta 
      gctgagcga atagccgac tactgcgag gcgatcctc 
      acaaccgaa gatttgtgc aaaccgagc ttgaagtgc 
      tgcgtttcg agcgacgct tttggtgac aaaatacca 
      ccaaaccta ataatcccc aacaaaacc aaaagcaac 
      tacaccaga accgaagta cggacgacc ccgaaacca 
      agtaccacc acaatgcgg acgctcccc tcccaggaa 
      aaacacccc gcgttgaag caaccccca aagccctgc 
      cgcggcgag tgcgtcagc ggcttcttc gccctgttc 
      tgcgacgac atcgactcc gaagccgag tgccctgcg 
      gagggaagc tgctgcatc acctcgccc agcgagaaa 
      acaatcacc actacgagt ccaagaccc accacgccg 
      gaccccgga ccccgctgt cccggcttc tgccttctg 
      accatcatg gcagcgttt tgcgaacgc ccgtcggtc 
      ctaatcccg cacacttcg aattgtaaa agagggtcc 
      gtctgttgt gacaataca cgggctgca attacactc 
      gcccgaccg aaaccacga ccgcaccaa ccgccgata 
      actaccacc accacaacg gccgacccc aggagcgaa 
      tgtcctggc tcctgcatt gtctcctat ctgagcttc 
      acctgcttc cgaaatgcg gaaatgact gagctgttc 
      aagtgccgc aagtccggg acgaagtgc tgcgccccg 
      aagtcgctg attaaggag gctctgggc cagaaagag 
      gagtctacg cacaaggag agtacgcaa gtgagtgtg 
      gatcacacg acggtgtcg gtgcctgag gcttcgcaa 
      gctttggag ccgacgaaa gtcctatca acaactgcg 
      aagcccccc atctacagt aaatacgta tgtggggtt 
      aaaggtacg tcgcgcgct ggtagagtt gttggtggt 
      gaagacggt gagcaggct gaatggtgt tggcaagtt 
      gctttaatt aattctctc aatcagtat ttatgcgga 
      gcagcgtta attggaacg caatgggtt ctgacagct 
      gcacactgt gtgacaaat attgtgcgg tcaggtgac 
      gctatatat gtgagagtc ggtgatcac gacttgacc 
      cggaaatac ggcagtccc ggagcgcaa actctaaga 
      gttgcgacc acgtatata catcataat cataacagt 
      cagacttta gataacgat attgccctg ttaaaactc 
      cacggacag gcggaactg aaggaaggg gtgtgcttg 
      gtgtgtttg ccggcgaga ggagtcagc catgctgca 
      gggaaaagg tgtactgtt acggggtac ggttacatg 
      ggagaagct ggcccgatt ccgctgagg gtacgagag 
      gccgaaatt cccattgtg agtgatgcg gaatgcatc 
      aggaaggtt aacgccgtt acggagaaa atatttatt 
      ctgccagcc agcagcttc tgtgcaggg ggagaagaa 
      ggcaacgac gcctgtcag gtattatca ttttatcag 
      atttttaag taa
    mRNA sequence
    • >TC004622 RA
      caagtaatg gcgagatgt aggagtcaa gtatatgtt 
      gagtcaagg ccaggccct cgttctggg caaaccaac 
      ggataactg tgcactctg gcagtcagc atacgaatg 
      gccgagtaa aactaagaa gtgctgcgc caaggagcc 
      ttgaaccaa tacagaagg catccgcaa cggtaaatt 
      ctggaagcg attccgtat tgcacacaa gttagttgc 
      gcatatgaa tgaaacaat cgcggcttt ctggagcca 
      aacgatgcg ctcgtgttg actgtgagt gtcggggcc 
      actttggag cgctaaaat gtttaggac cgccagatt 
      tgctcttgt gcttttgtg tagtgcact tgcaggagc 
      tcaagatga ctccctcgc aggaagctt tctttcagg 
      ccttttgga cacaattac aagcactgc cgatgcaaa 
      agattgccc aggcgtatg cgttcatgc tttagccac 
      aataatctg ctacgacgt cttagagga cgtcgtatg 
      tccatcatc atcaatgaa atgctgtgt ggaacctcc 
      cgcacccaa ctcaactga gaaagctcc accacaaac 
      cacaacacc caatcaaac aacatccac aacaatcac 
      gacaacaac agttgaaaa aacaacaac tagtacaac 
      aattgcacc aacaacgac caatacctc aaatcagat 
      agcctccga cgataaaat aaaacgcaa aaactccaa 
      tagcagcaa agaagaacc tgcgtcggc caaagcctg 
      tcccggtgt atgtgtagc tgagcgaat agccgacta 
      ctgcgaggc gatcctcac aaccgaaga tttgtgcaa 
      accgagctt gaagtgctg cgtttcgag cgacgcttt 
      tggtgacaa aataccacc aaacctaat aatccccaa 
      caaaaccaa aagcaacta caccagaac cgaagtacg 
      gacgacccc gaaaccaag taccaccac aatgcggac 
      gctcccctc ccaggaaaa acaccccgc gttgaagca 
      acccccaaa gccctgccg cggcgagtg cgtcagcgg 
      cttcttcgc cctgttctg cgacgacat cgactccga 
      agccgagtg ccctgcgga gggaagctg ctgcatcac 
      ctcgcccag cgagaaaac aatcaccac tacgagtcc 
      aagacccac cacgccgga ccccggacc ccgctgtcc 
      cggcttctg ccttctgac catcatggc agcgttttg 
      cgaacgccc gtcggtcct aatcccgca cacttcgaa 
      ttgtaaaag agggtccgt ctgttgtga caatacacg 
      ggctgcaat tacactcgc ccgaccgaa accacgacc 
      gcaccaacc gccgataac taccaccac cacaacggc 
      cgaccccag gagcgaatg tcctggctc ctgcattgt 
      ctcctatct gagcttcac ctgcttccg aaatgcgga 
      aatgactga gctgttcaa gtgccgcaa gtccgggac 
      gaagtgctg cgccccgaa gtcgctgat taaggaggc 
      tctgggcca gaaagagga gtctacgca caaggagag 
      tacgcaagt gagtgtgga tcacacgac ggtgtcggt 
      gcctgaggc ttcgcaagc tttggagcc gacgaaagt 
      cctatcaac aactgcgaa gccccccat ctacagtaa 
      atacgtatg tggggttaa aggtacgtc gcgcgctgg 
      tagagttgt tggtggtga agacggtga gcaggctga 
      atggtgttg gcaagttgc tttaattaa ttctctcaa 
      tcagtattt atgcggagc agcgttaat tggaacgca 
      atgggttct gacagctgc acactgtgt gacaaatat 
      tgtgcggtc aggtgacgc tatatatgt gagagtcgg 
      tgatcacga cttgacccg gaaatacgg cagtcccgg 
      agcgcaaac tctaagagt tgcgaccac gtatataca 
      tcataatca taacagtca gactttaga taacgatat 
      tgccctgtt aaaactcca cggacaggc ggaactgaa 
      ggaaggggt gtgcttggt gtgtttgcc ggcgagagg 
      agtcagcca tgctgcagg gaaaaggtg tactgttac 
      ggggtacgg ttacatggg agaagctgg cccgattcc 
      gctgagggt acgagaggc cgaaattcc cattgtgag 
      tgatgcgga atgcatcag gaaggttaa cgccgttac 
      ggagaaaat atttattct gccagccag cagcttctg 
      tgcaggggg agaagaagg caacgacgc ctgtcaggt 
      attatcatt ttatcagat ttttaagta aaccgctag 
      cttgcgcgc gcgcaccca cgttgaaag tccgatttt 
      ttagtagaa aaacacaaa attcgttga atgcgaatt 
      ttttaatga tattaggga agcgggtat aacatgtac 
      tcaagatcc aagctctat ttaaacatt tagttcaaa 
      attttaccc tcaagatta atctggtta cttactagt 
      taagctagt ttgtaactg gtgtagcta attgatggc 
      ttaacagtt tcagaaata tagaatatt aggttct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY