Status
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Gene information
General information
TC004143 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: 1621479..1627243
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
    TC004143
    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_00667

    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: 40.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): less than 30%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax fragmented - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen structure 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: 10.0% (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
    • >TC004143 RA
      MLKFGSKHD SNIVYKCTV RLLEDTEIL ECEYKPHHK 
      GKYLLEYVC QQLNLVEQD YLGLRYVDI QDQRHWLDL 
      GKSICKQVK DLDPVLFSF RVKFYPPDP FRLKEEITR 
      YQIFLQLKR DLLHGRLYC ATNEAAMLA ALILQGELG 
      DYDPEIHVG NYMSELKIL LKQTETIEE KAMEIHQKQ 
      LKGQSPSQV ENTFLKLAC QLDAYGVDP HPVKDHKGS 
      QLYLGINYA GILTIQGSR KTHHFRWPD IQKINYEGK 
      MFIIHLNYN DKKHTVGFK CPTGAACRH VWKCAVEQM 
      LFFTLPASS DAPTVSGGG FFSWGTKFK YTGRTEKEI 
      LEDSGSPTR EEPSIQRTS SLRRKASSV PATPSTPLQ 
      PHLGYSSLP RSSHSDAGG SRMESSNST GLLSGLDGN 
      PSQAYSDVA ALETVSEDQ EAMGASKLR TTVLKDDSM 
      DRFSDYYFR DSFEHSSSE SQLIDSYRG YETTNPSHR 
      SSRSQTPLS HSQVDGRIC LPNATHSVQ TNVKKTRKF 
      NIVGAFIPT FIIVTIFVL IATVVMLET DCELFGSFR 
      NIPEMVSLK YQFYEPIKQ YFRSKMSIF F
    CDS sequence
    • >TC004143 RA
      atgttaaag tttggctcc aaacatgac agtaatatt 
      gtttacaaa tgcacggtc cgattattg gaagatacg 
      gaaatccta gaatgtgaa tataagccc caccataag 
      ggtaaatac ttgttggaa tatgtgtgt caacagttg 
      aatttagta gaacaagac tacttaggg ctccgctat 
      gttgatatt caagaccaa agacactgg ctggactta 
      gggaaatca atctgtaaa caagtcaaa gatttggat 
      ccggtcctg tttagtttt cgtgttaaa ttctaccct 
      cctgatcca ttccgcctt aaggaagaa ataacacgt 
      taccaaata tttttgcaa ttaaaacga gatctacta 
      catgggcgc ttatattgc gccacgaac gaagccgca 
      atgttggca gcacttatc ttacaaggt gaattgggc 
      gattacgac cctgaaatt cacgttgga aattacatg 
      agcgaatta aaaatacta cttaaacag actgaaacc 
      atagaggag aaagcgatg gaaatccat cagaagcaa 
      ctcaaaggc caaagcccc tcgcaagtg gaaaacacc 
      ttcctcaaa ctggcctgc caactagac gcctacgga 
      gttgacccg cacccagtg aaggaccat aaagggagt 
      cagctctac ttgggcata aattatgcc ggaattttg 
      acaattcaa ggtagtaga aaaacgcac cacttccgg 
      tggcccgac atacagaaa atcaactac gagggaaaa 
      atgttcata atccaccta aattacaat gataaaaag 
      catacggtt ggttttaaa tgccccacg ggcgccgcc 
      tgtcgccac gtttggaaa tgtgccgtt gaacaaatg 
      ctatttttc actttgccg gcaagttcc gacgccccg 
      actgtgagc ggcggtggg ttcttctca tggggtacg 
      aagttcaaa tatacaggg cgtactgaa aaggaaatc 
      ctggaagac agcggctcc ccaacacgg gaggagccc 
      agcattcaa cgcacgtcc agtttgagg cgtaaagcg 
      tccagtgta cctgcaact ccttcaacc ccccttcag 
      ccccattta ggttatagt agtctgccg aggtcgagt 
      cattcggac gccggaggc tcccgaatg gagtctagt 
      aatagtaca gggttgctg tcagggtta gacgggaac 
      ccgtcccaa gcttacagt gatgttgct gccttagaa 
      actgtttcg gaagaccag gaggcgatg ggcgcctcc 
      aaacttcga acaacagta ttgaaggat gattcgatg 
      gatcgcttc agtgattat tatttccgg gactcgttc 
      gaacattcg tcgtccgaa tcccagtta attgatagt 
      taccgcggc tacgagact acgaatccc tctcatcgc 
      tccagtcgt agccaaact ccgttatct cattctcag 
      gttgatggt cgaatttgc ctgccaaat gctacacat 
      agtgtacaa acaaatgtt aagaaaact agaaaattt 
      aacatcgtg ggcgcgttc atacccacg ttcattata 
      gtaacgata tttgtacta attgctacc gttgtaatg 
      ttagaaact gattgtgaa ttatttggt agctttagg 
      aacattccg gagatggtc tcgctaaaa taccaattc 
      tatgaacca attaaacaa tattttcga agtaaaatg 
      tcgatattt ttctga
    mRNA sequence
    • >TC004143 RA
      tgtaaataa atgacgata cagacagat gtgctcgca 
      gaaagagta tgtgaaggt attggcttt tttcaaggg 
      gtgtacaat cggagtatg taatattga ttgcatttt 
      tctggcgca gtacaaata aacgaatca ccctgtgta 
      aaaaccagc ccttgtaac tttttacga aagttggcg 
      aaattaatg gtggggcaa ttgctttta ttgggacat 
      tttgtgatg aatgaaacg tagaaagtt ggcaatgaa 
      gtgaactcg tgttgtgac tccgcccaa caggtgaac 
      tatgcgcca aaatgggcg gggtttagc ggggaggag 
      tattgcagt tgtgttgat tgttgtctt gttaaaaaa 
      ataatttag gaattgttt tttcttggg atgatcgcc 
      ggatttgtc ctttcaggc aaccgagtt gtctcgttg 
      ttgtgggga gtttcgatg ttgttcatg cgcagctac 
      gtcacgtag tattcaagc ttctgtcaa aaatatgtg 
      tcaaatgct gtcttgtgt tatttacgt aaataattg 
      tctgttgta aaataagat aataaattt tataaaaag 
      ttgcgaatt ataaatgaa ctagacata tgtttaaag 
      tggaaaatg ttaaagttt ggctccaaa catgacagt 
      aatattgtt tacaaatgc acggtccga ttattggaa 
      gatacggaa atcctagaa tgtgaatat aagccccac 
      cataagggt aaatacttg ttggaatat gtgtgtcaa 
      cagttgaat ttagtagaa caagactac ttagggctc 
      cgctatgtt gatattcaa gaccaaaga cactggctg 
      gacttaggg aaatcaatc tgtaaacaa gtcaaagat 
      ttggatccg gtcctgttt agttttcgt gttaaattc 
      taccctcct gatccattc cgccttaag gaagaaata 
      acacgttac caaatattt ttgcaatta aaacgagat 
      ctactacat gggcgctta tattgcgcc acgaacgaa 
      gccgcaatg ttggcagca cttatctta caaggtgaa 
      ttgggcgat tacgaccct gaaattcac gttggaaat 
      tacatgagc gaattaaaa atactactt aaacagact 
      gaaaccata gaggagaaa gcgatggaa atccatcag 
      aagcaactc aaaggccaa agcccctcg caagtggaa 
      aacaccttc ctcaaactg gcctgccaa ctagacgcc 
      tacggagtt gacccgcac ccagtgaag gaccataaa 
      gggagtcag ctctacttg ggcataaat tatgccgga 
      attttgaca attcaaggt agtagaaaa acgcaccac 
      ttccggtgg cccgacata cagaaaatc aactacgag 
      ggaaaaatg ttcataatc cacctaaat tacaatgat 
      aaaaagcat acggttggt tttaaatgc cccacgggc 
      gccgcctgt cgccacgtt tggaaatgt gccgttgaa 
      caaatgcta tttttcact ttgccggca agttccgac 
      gccccgact gtgagcggc ggtgggttc ttctcatgg 
      ggtacgaag ttcaaatat acagggcgt actgaaaag 
      gaaatcctg gaagacagc ggctcccca acacgggag 
      gagcccagc attcaacgc acgtccagt ttgaggcgt 
      aaagcgtcc agtgtacct gcaactcct tcaaccccc 
      cttcagccc catttaggt tatagtagt ctgccgagg 
      tcgagtcat tcggacgcc ggaggctcc cgaatggag 
      tctagtaat agtacaggg ttgctgtca gggttagac 
      gggaacccg tcccaagct tacagtgat gttgctgcc 
      ttagaaact gtttcggaa gaccaggag gcgatgggc 
      gcctccaaa cttcgaaca acagtattg aaggatgat 
      tcgatggat cgcttcagt gattattat ttccgggac 
      tcgttcgaa cattcgtcg tccgaatcc cagttaatt 
      gatagttac cgcggctac gagactacg aatccctct 
      catcgctcc agtcgtagc caaactccg ttatctcat 
      tctcaggtt gatggtcga atttgcctg ccaaatgct 
      acacatagt gtacaaaca aatgttaag aaaactaga 
      aaatttaac atcgtgggc gcgttcata cccacgttc 
      attatagta acgatattt gtactaatt gctaccgtt 
      gtaatgtta gaaactgat tgtgaatta tttggtagc 
      tttaggaac attccggag atggtctcg ctaaaatac 
      caattctat gaaccaatt aaacaatat tttcgaagt 
      aaaatgtcg atatttttc tgattattt aagctctct 
      catttgcat ttcgaattc agcttgaag aactctttg 
      aagtagcaa cagattagt ttagttgca tagagtaag 
      gaatccaat tattaaaat agttcctgc aatactaaa 
      tcattagac taggttacg gtttcttta acgacaaaa 
      tcagttttg tgttctaat ggctttaag caaaatgca 
      ctgttttgt gatacattc gttgaacga actaaagtg 
      taacattcc gttcagggc gcttcaacg ttattgtgg 
      gcgttcctc attttttta atttattga acaaatgta 
      caattttta tacaaaagt actcgggca gaaatattt 
      tgttggcaa ttaaattta agaaatctg tgatctttt 
      ctcaatctg ctgctatag taatagaaa taatcgtac 
      aaagaagtg caatcaaaa tctattttc cgttgaatt 
      tgtaactcg aatcataat tgctactta cgccaacaa 
      tttgtgatt gtgttatac ttttgtgta cacagactt 
      gcttagcga ggctatata attttgtat gtatgtatg 
      atgatttaa ggggccaca gattcagaa gcacttagt 
      tcatctatt tttatacgt tttattatt ttcaatttt 
      atttttgtt atctttcta tgatgtaac tcatttcgc 
      caaataaac ttaagtcaa ttaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY