Status
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Gene information
General information
TC006686 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: 12857434..12858958
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
      TC006686
      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
      {{ goGene }}
      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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      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_04194

      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: 0.0% (includes death as pupa, adult)

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

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


      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC006686 RA
        MLFKVLETF IMYVLVCAL AFDDIFVDG NDSQEMIEQ 
        GRTQYQLLR EKGNLPRYG TCWKGALEH VEDGCKNLS 
        EDTQSDMAL HITNCFLEM SGHETYNCE LDKKPNLRS 
        ICISSMSDR AFHVYTEFY THVQNICWF LRGQIWYET 
        ISENSFKVG KRLEESAKN QEELLEAQK ESLEIQKKV 
        LKQEKLLEE VLGDLYVST KAHQEILGV LARSVAKFQ 
        TWVIGEVSW FDSIVFYVI SGLFVFMFT AIKRTASAR 
        LPLLMILFA NLVIERFIC YFLVTDDAL VDSRILYDA 
        IYSYIWYCR YFFIFLSVL YFFYHFYNY KDLMLENNK 
        FLQTISKQN TKILELLQG FNNNFRERT PKSDINFIN 
        ESLHCNGFL KKSNVDFDE SGSSTYSEK IRGRRTYLK 
        NLTVTETHS RYNLRSKQN TPDLN
      CDS sequence
      • >TC006686 RA
        atgcttttc aaagtgctc gaaacgttc ataatgtac 
        gtattagtg tgcgctttg gcctttgac gacattttc 
        gtcgatgga aacgactcg caagagatg atagagcag 
        ggccggacc cagtaccag cttctcagg gaaaaaggc 
        aacctacct cggtacggc acctgctgg aaaggcgcc 
        ctcgagcac gtggaagac ggctgcaag aacctctcc 
        gaagacacc cagagtgac atggcctta cacataact 
        aactgtttt cttgaaatg tcgggccat gaaacgtac 
        aattgcgaa ttggacaaa aagccaaac ttgcgaagc 
        atttgcatt agtagtatg tctgatcgg gcgtttcac 
        gtctatacg gagttctac acacacgtg cagaatatc 
        tgctggttt ttgcgtggc cagatttgg tacgaaacc 
        atcagtgag aatagtttt aaagtgggg aagcggtta 
        gaagagtcg gctaaaaat caagaagag ttgctggaa 
        gcacagaag gagagtcta gagatacag aagaaggtg 
        ctaaagcag gagaaattg ctagaggag gtgttgggc 
        gatttgtac gtttccaca aaagcgcat caggaaatt 
        ttgggtgtt ttggcgcga agtgtcgcc aagtttcag 
        acgtgggtc attggggag gtgtcctgg tttgactcg 
        attgtgttt tatgtgatt tcgggatta ttcgttttt 
        atgtttacg gcgattaag cgcacggca agtgcccga 
        ttgccactt ttgatgatt ttattcgcc aatttggtc 
        attgaacgt tttatttgc tattttcta gtcaccgat 
        gacgcctta gttgattcg agaatttta tacgacgcg 
        atttattcc tacatttgg tattgtcgc tactttttt 
        atttttttg tcagttctt tatttcttt tatcacttt 
        tataattac aaagacttg atgcttgaa aacaataag 
        ttcctccaa actatcagt aaacagaat acgaaaatt 
        ttagaactg ttgcaaggt tttaataat aattttcgg 
        gagcggacg ccgaagagt gatattaat tttattaac 
        gaaagtctg cattgtaac gggttttta aaaaaaagt 
        aacgttgat tttgatgag agtggcagc tccacctat 
        tctgaaaaa ataaggggc aggcgaacg tatctaaaa 
        aatttaacc gtgactgaa actcatagt cggtataac 
        ttacgcagt aagcaaaac acgcctgat ttaaattag
      mRNA sequence
      • >TC006686 RA
        aacctagat aaacaaacc gtcaaaaaa aaacgaccg 
        acgatgctt ttcaaagtg ctcgaaacg ttcataatg 
        tacgtatta gtgtgcgct ttggccttt gacgacatt 
        ttcgtcgat ggaaacgac tcgcaagag atgatagag 
        cagggccgg acccagtac cagcttctc agggaaaaa 
        ggcaaccta cctcggtac ggcacctgc tggaaaggc 
        gccctcgag cacgtggaa gacggctgc aagaacctc 
        tccgaagac acccagagt gacatggcc ttacacata 
        actaactgt tttcttgaa atgtcgggc catgaaacg 
        tacaattgc gaattggac aaaaagcca aacttgcga 
        agcatttgc attagtagt atgtctgat cgggcgttt 
        cacgtctat acggagttc tacacacac gtgcagaat 
        atctgctgg tttttgcgt ggccagatt tggtacgaa 
        accatcagt gagaatagt tttaaagtg gggaagcgg 
        ttagaagag tcggctaaa aatcaagaa gagttgctg 
        gaagcacag aaggagagt ctagagata cagaagaag 
        gtgctaaag caggagaaa ttgctagag gaggtgttg 
        ggcgatttg tacgtttcc acaaaagcg catcaggaa 
        attttgggt gttttggcg cgaagtgtc gccaagttt 
        cagacgtgg gtcattggg gaggtgtcc tggtttgac 
        tcgattgtg ttttatgtg atttcggga ttattcgtt 
        tttatgttt acggcgatt aagcgcacg gcaagtgcc 
        cgattgcca cttttgatg attttattc gccaatttg 
        gtcattgaa cgttttatt tgctatttt ctagtcacc 
        gatgacgcc ttagttgat tcgagaatt ttatacgac 
        gcgatttat tcctacatt tggtattgt cgctacttt 
        tttattttt ttgtcagtt ctttatttc ttttatcac 
        ttttataat tacaaagac ttgatgctt gaaaacaat 
        aagttcctc caaactatc agtaaacag aatacgaaa 
        attttagaa ctgttgcaa ggttttaat aataatttt 
        cgggagcgg acgccgaag agtgatatt aattttatt 
        aacgaaagt ctgcattgt aacgggttt ttaaaaaaa 
        agtaacgtt gattttgat gagagtggc agctccacc 
        tattctgaa aaaataagg ggcaggcga acgtatcta 
        aaaaattta accgtgact gaaactcat agtcggtat 
        aacttacgc agtaagcaa aacacgcct gatttaaat 
        tagtaaagt gcctgattg taaatattt gtaattaat 
        tgttgacgc ttagtgtaa ataccaaag tttatttta 
        acccaacct gtgctcaaa aatgattct ctcttgaaa 
        tcgtctgta aagaagtgt cgtttgtaa tattggttg 
        catggactt cagattttc gtaatacag tagaacgtc 
        gatcatccg agttttttg tgcaactaa tatggagga 
        tttccaaaa gaaa
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY