Status
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Gene information
General information
TC006120 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: 2696075..2697962
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
    TC006120
    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_04069

    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: < 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006120 RA
      MSTSDIRDF FKNQTLFLT GGSGFVGKL ILEKLLREC 
      PDIKKIFLI LRPKKGKTS QQRFDELFD MPCFELLKS 
      MKINISEKV FLVDGDCQE PFLGLSAQN LDLLREEVT 
      CVIHAAANV KFDQSLKEA AFNVRATRD LLELAKQMP 
      NLKSFVYVS TAYSNCLNP HIREDFYEP PLKPENLLS 
      VVNSLDDDV LTKITPSLL GPWPNTYIY TKSITEDLV 
      KSASTSLPI AIVRPAIIV GSIKEPVPG WIDNFYGVV 
      GIVLAASLG VLRSLNAKL DAIAPIVPV DYVANVIIA 
      AACKTGREQ PKFPVIYNY VRFGKNSQL TWDQFMKKV 
      EPECWNAAC DKVVWYFGF KLRENKTWH NIYIFFTHT 
      VVAHIVDFV LLCVGRPTL AVKNYERLN KLLDLISYF 
      STRSWTFDT DNVTKLWHE MSDDDKNRF EFHLDSVDW 
      NSFAHDSVF GGRKFLLKE SLDTIPKGK RKLRILFFA 
      HYTLMAVFW FLMYKFVRF LFGSSF
    CDS sequence
    • >TC006120 RA
      atgtccacg agtgacata cgtgatttt ttcaaaaac 
      cagacactt ttcctaacc ggaggttcg ggttttgtc 
      ggtaaacta attctagaa aaactccta cgagaatgt 
      cccgacatc aaaaaaatc ttcctgatt ttgcgtccg 
      aaaaagggc aaaacgtcc caacaacgc ttcgacgaa 
      ctgttcgac atgccttgt ttcgaatta ctcaaatcg 
      atgaaaatc aacatctcg gagaaagtt tttttggtg 
      gacggtgat tgtcaagag ccttttttg ggcctcagt 
      gcccaaaat ttggacttg ttgcgcgag gaagtgacg 
      tgcgttatc catgctgcg gccaatgtt aaattcgac 
      caaagtctc aaagaggca gctttcaat gttcgagcg 
      actcgagat ttgctcgaa ttggccaaa cagatgcca 
      aacttgaag agttttgtc tacgtctcg acggcttat 
      tccaactgc cttaaccct cacattagg gaagatttt 
      tacgaacca cccctaaaa cccgaaaac ttactctcg 
      gtggtgaat tccctcgat gacgatgtt ttgacgaaa 
      ataacacca tctttgttg ggcccttgg cccaacact 
      tacatctac accaaatcc ataactgag gatttagtc 
      aaatcagct agtactagc ctcccgatt gccatagta 
      cgcccagct atcattgta ggttcgatc aaagaacca 
      gtccctggc tggattgac aacttttac ggagttgtt 
      ggtatagtt ctagctgca tctttgggc gttttgagg 
      agtctgaat gcaaaacta gacgccata gcacccata 
      gtaccggtc gattatgtc gccaatgta atcatagca 
      gcggcttgt aaaaccgga agagaacaa ccgaaattc 
      ccggtcatt tacaactac gtccgcttt ggcaaaaac 
      agtcaactc acttgggac caatttatg aaaaaagtg 
      gagcccgaa tgttggaac gcagcgtgt gataaagtc 
      gtttggtac ttcggcttc aaactacgc gaaaataag 
      acttggcac aacatttac atatttttc acgcacact 
      gttgtggcc cacattgtt gatttcgtc ctgctctgt 
      gtcggaaga ccgacttta gctgtgaaa aattacgaa 
      cgtctcaat aaactgctc gacttgatt tcgtatttc 
      tcgacccgg agctggact tttgacact gataatgtt 
      acaaaattg tggcacgaa atgagcgat gatgataag 
      aacagattt gagtttcat ttggattcg gtcgactgg 
      aattcgttt gcccacgac agtgttttc ggaggaaga 
      aaattcctt ctgaaggaa agtctcgat actattcca 
      aaaggaaaa cggaaactt agaattctg ttttttgcg 
      cattatact ctaatggcc gtgttttgg tttctcatg 
      tataaattt gtaaggttt ttgtttggt tcctctttc 
      taa
    mRNA sequence
    • >TC006120 RA
      tatttgttg tgtcccaca atgtccacg agtgacata 
      cgtgatttt ttcaaaaac cagacactt ttcctaacc 
      ggaggttcg ggttttgtc ggtaaacta attctagaa 
      aaactccta cgagaatgt cccgacatc aaaaaaatc 
      ttcctgatt ttgcgtccg aaaaagggc aaaacgtcc 
      caacaacgc ttcgacgaa ctgttcgac atgccttgt 
      ttcgaatta ctcaaatcg atgaaaatc aacatctcg 
      gagaaagtt tttttggtg gacggtgat tgtcaagag 
      ccttttttg ggcctcagt gcccaaaat ttggacttg 
      ttgcgcgag gaagtgacg tgcgttatc catgctgcg 
      gccaatgtt aaattcgac caaagtctc aaagaggca 
      gctttcaat gttcgagcg actcgagat ttgctcgaa 
      ttggccaaa cagatgcca aacttgaag agttttgtc 
      tacgtctcg acggcttat tccaactgc cttaaccct 
      cacattagg gaagatttt tacgaacca cccctaaaa 
      cccgaaaac ttactctcg gtggtgaat tccctcgat 
      gacgatgtt ttgacgaaa ataacacca tctttgttg 
      ggcccttgg cccaacact tacatctac accaaatcc 
      ataactgag gatttagtc aaatcagct agtactagc 
      ctcccgatt gccatagta cgcccagct atcattgta 
      ggttcgatc aaagaacca gtccctggc tggattgac 
      aacttttac ggagttgtt ggtatagtt ctagctgca 
      tctttgggc gttttgagg agtctgaat gcaaaacta 
      gacgccata gcacccata gtaccggtc gattatgtc 
      gccaatgta atcatagca gcggcttgt aaaaccgga 
      agagaacaa ccgaaattc ccggtcatt tacaactac 
      gtccgcttt ggcaaaaac agtcaactc acttgggac 
      caatttatg aaaaaagtg gagcccgaa tgttggaac 
      gcagcgtgt gataaagtc gtttggtac ttcggcttc 
      aaactacgc gaaaataag acttggcac aacatttac 
      atatttttc acgcacact gttgtggcc cacattgtt 
      gatttcgtc ctgctctgt gtcggaaga ccgacttta 
      gctgtgaaa aattacgaa cgtctcaat aaactgctc 
      gacttgatt tcgtatttc tcgacccgg agctggact 
      tttgacact gataatgtt acaaaattg tggcacgaa 
      atgagcgat gatgataag aacagattt gagtttcat 
      ttggattcg gtcgactgg aattcgttt gcccacgac 
      agtgttttc ggaggaaga aaattcctt ctgaaggaa 
      agtctcgat actattcca aaaggaaaa cggaaactt 
      agaattctg ttttttgcg cattatact ctaatggcc 
      gtgttttgg tttctcatg tataaattt gtaaggttt 
      ttgtttggt tcctctttc taataaagt tggttaaaa 
      tgaacgatt tttattttt gaatgcccg ccagtaagc 
      tttacgcaa atattttga acacttttt atgctttat 
      gcaaaataa attcaaaac tgttac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY