Status
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Gene information
General information
TC005610 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: 10639056..10641068
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
    TC005610
    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_09372

    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: 30.0% (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


    adult lethality - Number of animals showing the phenotype: 2 (9 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: % (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
    • >TC005610 RA
      MNYDDVVYL CLLFFSIAF GYYYRTIKD KDLKKNVGT 
      AVGLCITLI VSGIHILHS FVTVFVNIL IILFVNKKQ 
      CHLASFAFS FLYLLFFRS TIHFGIPYP PAHTNLVQM 
      ILTLKLVGL AFEVNSTHN SRKKRDTSE KNQEERDED 
      EANRIEPTC LDIIHYAFN YVGVLTGPY YRYRTFVDS 
      LNFPFSEHA DWKKATIDK LKYVPLYSA LFLWGSYYW 
      PISYAMSDE FYERSWLYR YWYIWPNFF IFRMRIYIG 
      IVLSECVCT MAGLGAYPT LTNPKPGQG PSEKFHEMK 
      KLISNEDAL KKTDYDFET IHNINPYGA DFCTTYREA 
      MKHWNICIQ YWLAVNVYK RFPSKKYRT AVTMLVSSF 
      WHGVYSGYY VCIGTAPLC LMLEDVYYK LYLKDGKGP 
      YFKVLEWVH WFFRMHFFS YQGIAFLLL EVNLILKYY 
      NSIYHAGLV LWVILYVVG FKLLKDKRR REKKIAEKA 
      AKNE
    CDS sequence
    • >TC005610 RA
      atgaattat gacgacgtt gtgtattta tgtttgttg 
      tttttctcg atagctttc ggttactac taccgaacc 
      atcaaagac aaagacttg aaaaaaaat gttgggact 
      gctgttggt ctttgcatc actctgatt gtctccggg 
      attcacata ctccactcc ttcgtcacc gtttttgtc 
      aacattttg ataatcttg tttgtgaat aagaaacaa 
      tgtcacttg gccagtttt gccttctcc ttcctttac 
      ttgctcttc ttccgctca actattcac ttcgggatt 
      ccatacccg ccagctcac actaatcta gttcaaatg 
      atcctcact ttgaagctg gtgggttta gcttttgag 
      gtaaactcc actcacaat tcccggaag aaacgggac 
      acgtccgaa aaaaaccaa gaggagaga gacgaagat 
      gaggctaac agaatcgag ccgacgtgt ctcgatatt 
      atccactac gcgtttaat tacgtgggc gttttgacc 
      ggcccttat taccggtat cgcactttt gtcgactct 
      ctcaacttc ccgttttcc gaacacgcg gactggaag 
      aaagcaact attgacaaa ctcaaatat gttcctctt 
      tactctgct ttattcctt tggggctct tactattgg 
      ccaatatct tacgcgatg agtgacgaa ttttatgag 
      agatcttgg ctgtaccgc tattggtac atttggccg 
      aactttttc atcttcaga atgcgaatt tacattgga 
      atagtgtta tcagagtgt gtctgtacc atggcaggt 
      cttggggca tatcccact ctaacgaac cctaaaccg 
      ggtcaggga ccatcggag aaattccac gaaatgaaa 
      aaactcata tcaaacgag gatgcgtta aaaaagact 
      gactacgat tttgaaact atccataat attaaccca 
      tatggggcc gatttttgc accacttac agggaggcg 
      atgaagcac tggaatatc tgtatacaa tattggttg 
      gcggtcaat gtttacaaa agattcccc agcaaaaaa 
      tacagaacg gctgtcacc atgctagtg tcttccttt 
      tggcacggg gtctactcc gggtattac gtttgcatc 
      ggaactgcg cccctttgc ctcatgctg gaggatgtg 
      tattacaaa ctgtacctc aaggacgga aaaggaccg 
      tatttcaaa gtattggaa tgggtccac tggtttttc 
      agaatgcac ttcttttca taccagggc attgcgttt 
      ttgttactt gaagttaat ctcattttg aaatactat 
      aactcgatt tatcacgca gggttggtt ttgtgggta 
      attttgtac gttgttggg tttaaactg ttgaaggac 
      aagaggcgc agggagaaa aaaatagcc gagaaggcg 
      gcaaaaaat gaataa
    mRNA sequence
    • >TC005610 RA
      ctaacctta atcagagca tgattatgt aatttttta 
      ataatcaca acaaaaaat gaattatga cgacgttgt 
      gtatttatg tttgttgtt tttctcgat agctttcgg 
      ttactacta ccgaaccat caaagacaa agacttgaa 
      aaaaaatgt tgggactgc tgttggtct ttgcatcac 
      tctgattgt ctccgggat tcacatact ccactcctt 
      cgtcaccgt ttttgtcaa cattttgat aatcttgtt 
      tgtgaataa gaaacaatg tcacttggc cagttttgc 
      cttctcctt cctttactt gctcttctt ccgctcaac 
      tattcactt cgggattcc atacccgcc agctcacac 
      taatctagt tcaaatgat cctcacttt gaagctggt 
      gggtttagc ttttgaggt aaactccac tcacaattc 
      ccggaagaa acgggacac gtccgaaaa aaaccaaga 
      ggagagaga cgaagatga ggctaacag aatcgagcc 
      gacgtgtct cgatattat ccactacgc gtttaatta 
      cgtgggcgt tttgaccgg cccttatta ccggtatcg 
      cacttttgt cgactctct caacttccc gttttccga 
      acacgcgga ctggaagaa agcaactat tgacaaact 
      caaatatgt tcctcttta ctctgcttt attcctttg 
      gggctctta ctattggcc aatatctta cgcgatgag 
      tgacgaatt ttatgagag atcttggct gtaccgcta 
      ttggtacat ttggccgaa ctttttcat cttcagaat 
      gcgaattta cattggaat agtgttatc agagtgtgt 
      ctgtaccat ggcaggtct tggggcata tcccactct 
      aacgaaccc taaaccggg tcagggacc atcggagaa 
      attccacga aatgaaaaa actcatatc aaacgagga 
      tgcgttaaa aaagactga ctacgattt tgaaactat 
      ccataatat taacccata tggggccga tttttgcac 
      cacttacag ggaggcgat gaagcactg gaatatctg 
      tatacaata ttggttggc ggtcaatgt ttacaaaag 
      attccccag caaaaaata cagaacggc tgtcaccat 
      gctagtgtc ttccttttg gcacggggt ctactccgg 
      gtattacgt ttgcatcgg aactgcgcc cctttgcct 
      catgctgga ggatgtgta ttacaaact gtacctcaa 
      ggacggaaa aggaccgta tttcaaagt attggaatg 
      ggtccactg gtttttcag aatgcactt cttttcata 
      ccagggcat tgcgttttt gttacttga agttaatct 
      cattttgaa atactataa ctcgattta tcacgcagg 
      gttggtttt gtgggtaat tttgtacgt tgttgggtt 
      taaactgtt gaaggacaa gaggcgcag ggagaaaaa 
      aatagccga gaaggcggc aaaaaatga ataatcttg 
      gaattgtgt cttcgttag tgtagtaca aaaagaacc 
      aaaaatatt ttaataaag gtgattttg caattgata 
      gggttttgt aaaatgtat ttgtacgta atgatgggg 
      ccatacatt gtttatgat tgtagacaa ataaaaatt 
      tgcattacc t
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY