Status
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Gene information
General information
TC000029 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_007418.3: 15812190..15861457
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
    TC000029
    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
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    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_00003

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000029 RA
      MPQPTDNLP PSQHCLARA LYDNIPDSP DELAFRKGD 
      TLIVLEQNT ANIEGWWLC SLRGRQGIC PANRLRLIP 
      GVYEDTGQT RVCSPQLTE ISGDFSCLQ RQGKRRSWH 
      VQPNQVVTP KKYNDVYLY DMPPPRCSP IPVSGLSPG 
      FSPLVPDCY DVPPRAVPV APEFRNCTR CSPAPSCVS 
      PITRDEAYD IPRSLLSQP SPISPSSSA SSLTADSLS 
      SSNRSSLAN MPDYDVPRP LTRGPQFTH PPINYDILT 
      SQNLKELPL ELNSALENL ERLQSDTTG SISKLLGFV 
      GPQWRTREK LESNLMEIK LAVIRLRTS LHDLAEFGE 
      GTLGNATRA TDKNLASKL TPLVVALKK SDSLVCEAT 
      EKLNDQRWT LDLLARSDD DEKNRKPDE LEQLVACSR 
      ALTEDIRQI ASFIQGNGL LLFKREPQP NNNNEWLED 
      YDYVSLDSK EAVAKQHAE IREALPEKF KKTYDSLVK 
      HADDVAFDS DHKTGLDSD DKQLLSFFA AQLVTHHRN 
      LTQAIDAFL QTVEHNQPP KVFLAHGKF VVLSAHKLV 
      HIGDTVHRN VSCKEIKER ALNCANALS DALATSVNK 
      TKQAALQFP NVTAVQEMV DSIVDISYS ARDLKVCLV 
      QAANPM
    CDS sequence
    • >TC000029 RA
      atgcctcaa ccaacggat aacttgcct ccttcacag 
      cattgtttg gcgcgagct ttgtacgat aatatcccg 
      gattcacct gacgagctc gcatttcgg aaaggggat 
      actttaatc gtcctggaa cagaatacg gcaaatatc 
      gaaggatgg tggttgtgc tctctacga ggtagacag 
      ggtatttgc ccggctaat agacttcgc ctaatacca 
      ggagtgtac gaagacacc ggacagacg agagtttgt 
      tcaccgcag ttaacagaa atatccggc gattttagc 
      tgtcttcaa agacaggga aaaagaaga agttggcat 
      gtgcaacca aaccaggtg gtaacccca aaaaaatat 
      aacgacgtg tacctctac gacatgccc ccgcctcgc 
      tgctccccc atccccgtg tcaggcctc agccccggc 
      ttcagcccc ctcgtgccc gactgctac gacgtgccc 
      ccgcgcgcc gtccccgtc gcccccgaa tttcgcaac 
      tgcacgcga tgctcccct gcaccctcc tgcgtctcc 
      cccatcacc cgcgacgaa gcttacgac atcccccgc 
      tcgctcctc agccaaccg agccccatc agcccctca 
      agctccgcc agctcgctc acggcggac tcgctcagc 
      tcctccaac cggagcagt ctggccaac atgcctgac 
      tacgacgtc ccgaggcca ctcacccga ggaccccaa 
      ttcacgcac cccccaatc aactacgac atcctcacc 
      tcgcaaaac ctcaaagaa ctgccgttg gaactgaac 
      tctgctctg gaaaattta gaacggctg cagtcagac 
      accactggc tctatctcg aagttgctc gggtttgtg 
      gggccccaa tggcggacg cgggaaaaa ctggagagc 
      aatttgatg gagattaag ctggcggtg atcagactg 
      aggacgtcg ctgcacgac ctggcggag tttggcgaa 
      ggcacccta ggcaatgcc accagagcc accgataaa 
      aacttagca agtaaatta acgccgtta gtcgtcgcg 
      ttgaaaaaa tccgactct ttagtgtgc gaagcaacc 
      gaaaaatta aacgaccag cggtggact ctcgatttg 
      ttagcgcgt tccgacgac gatgaaaaa aaccgaaaa 
      cccgacgaa ctcgaacag ttagtcgcc tgctcgcgc 
      gccctcact gaagacatc cgacagata gcttcgttc 
      atccaaggc aacggcttg ctcctcttc aaacgcgaa 
      ccccaaccg aacaacaac aacgagtgg ctggaggac 
      tacgactac gtcagtctg gactccaag gaggccgtc 
      gccaagcaa cacgcggag atccgcgaa gccctcccc 
      gaaaaattc aaaaagact tacgatagt ttagttaag 
      cacgccgac gatgtcgcc ttcgacagt gaccacaaa 
      accggcttg gattcggac gataaacaa ctccttagt 
      ttctttgca gctcaatta gtaacacac cacagaaat 
      ttgacacaa gccattgac gcgttcttg cagactgtt 
      gaacacaat cagcccccg aaagtgttt ctcgcgcac 
      ggaaaattc gtcgttttg agtgctcac aagttggtt 
      cacattggt gatacggtc catagaaat gtctcctgt 
      aaggagatc aaggaaagg gcgctcaat tgtgccaac 
      gcgctgtcc gatgcttta gccactagt gtaaataag 
      accaaacaa gcagcttta cagttcccc aatgtcacg 
      gctgtgcag gagatggtc gactccatc gtcgatatt 
      tcctactct gcacgggac cttaaagta tgtctagtg 
      caagctgca aatccaatg taa
    mRNA sequence
    • >TC000029 RA
      ctgcacatt tattatttt tactggctg catgggagt 
      ggagaaggt gatggtatt cttcaagtt gggccttac 
      ttaacttta cctttattt tggtttttc tctatttct 
      ctgtgtttt tttaagttt cgtgttatt tccaaaatg 
      cctcaacca acggataac ttgcctcct tcacagcat 
      tgtttggcg cgagctttg tacgataat atcccggat 
      tcacctgac gagctcgca tttcggaaa ggggatact 
      ttaatcgtc ctggaacag aatacggca aatatcgaa 
      ggatggtgg ttgtgctct ctacgaggt agacagggt 
      atttgcccg gctaataga cttcgccta ataccagga 
      gtgtacgaa gacaccgga cagacgaga gtttgttca 
      ccgcagtta acagaaata tccggcgat tttagctgt 
      cttcaaaga cagggaaaa agaagaagt tggcatgtg 
      caaccaaac caggtggta accccaaaa aaatataac 
      gacgtgtac ctctacgac atgcccccg cctcgctgc 
      tcccccatc cccgtgtca ggcctcagc cccggcttc 
      agccccctc gtgcccgac tgctacgac gtgcccccg 
      cgcgccgtc cccgtcgcc cccgaattt cgcaactgc 
      acgcgatgc tcccctgca ccctcctgc gtctccccc 
      atcacccgc gacgaagct tacgacatc ccccgctcg 
      ctcctcagc caaccgagc cccatcagc ccctcaagc 
      tccgccagc tcgctcacg gcggactcg ctcagctcc 
      tccaaccgg agcagtctg gccaacatg cctgactac 
      gacgtcccg aggccactc acccgagga ccccaattc 
      acgcacccc ccaatcaac tacgacatc ctcacctcg 
      caaaacctc aaagaactg ccgttggaa ctgaactct 
      gctctggaa aatttagaa cggctgcag tcagacacc 
      actggctct atctcgaag ttgctcggg tttgtgggg 
      ccccaatgg cggacgcgg gaaaaactg gagagcaat 
      ttgatggag attaagctg gcggtgatc agactgagg 
      acgtcgctg cacgacctg gcggagttt ggcgaaggc 
      accctaggc aatgccacc agagccacc gataaaaac 
      ttagcaagt aaattaacg ccgttagtc gtcgcgttg 
      aaaaaatcc gactcttta gtgtgcgaa gcaaccgaa 
      aaattaaac gaccagcgg tggactctc gatttgtta 
      gcgcgttcc gacgacgat gaaaaaaac cgaaaaccc 
      gacgaactc gaacagtta gtcgcctgc tcgcgcgcc 
      ctcactgaa gacatccga cagatagct tcgttcatc 
      caaggcaac ggcttgctc ctcttcaaa cgcgaaccc 
      caaccgaac aacaacaac gagtggctg gaggactac 
      gactacgtc agtctggac tccaaggag gccgtcgcc 
      aagcaacac gcggagatc cgcgaagcc ctccccgaa 
      aaattcaaa aagacttac gatagttta gttaagcac 
      gccgacgat gtcgccttc gacagtgac cacaaaacc 
      ggcttggat tcggacgat aaacaactc cttagtttc 
      tttgcagct caattagta acacaccac agaaatttg 
      acacaagcc attgacgcg ttcttgcag actgttgaa 
      cacaatcag cccccgaaa gtgtttctc gcgcacgga 
      aaattcgtc gttttgagt gctcacaag ttggttcac 
      attggtgat acggtccat agaaatgtc tcctgtaag 
      gagatcaag gaaagggcg ctcaattgt gccaacgcg 
      ctgtccgat gctttagcc actagtgta aataagacc 
      aaacaagca gctttacag ttccccaat gtcacggct 
      gtgcaggag atggtcgac tccatcgtc gatatttcc 
      tactctgca cgggacctt aaagtatgt ctagtgcaa 
      gctgcaaat ccaatgtaa ttttttttg actgattta 
      ggtgtacat tcttttgaa attttattt atagtttca 
      cgaaattga cagtattca ctattcgag ctcatggca 
      gagccaaaa aacacaagg actcgacaa taacacctt 
      ccttgtatt ttttgtttt gtattttta gttgtacaa 
      atatattcc aattccttt tagtttctt tattttatt 
      acgacccac tgttcccac tttttacct taaaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY