Status
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Gene information
General information
TC011171 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_007425.3: 3305363..3350662
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
    TC011171
    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_01817

    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)

    remarks: later than schedule,
    Pupal morphology
    remarks: later than schedule,
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 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): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011171 RA
      MDDYYVNNF TVECTEEVM GPKRDSLYI VVPIIVIYG 
      VIFLTGTIG NISTCIVIS KNKTMHTAT NYYLFSLAI 
      SDLLLLVSG LPQEIYLIY SRYPYIFGS VFCFLRGMF 
      AETSANATV LTITAFTVE RYLAICHPF LSHTMSKLS 
      RAVKIILVI WLVAVGLAV PQAMQFELV GPTDCEQCA 
      FVKPIIQHS FEISTLLFF VLPMSLITV LYILIGQKL 
      KSSTMMKKR NVFGNAATS RVHTKSSRK VVKMLVAVV 
      VAFFICWAP FHAQRLYSL YSMKFEGLN HSVYLKIYE 
      IVTYISGIL YYISATINP ILYNIMSVK FREAFRETF 
      SRCCCFYQF KANRPQRSY SVLSRSAQR GPDSTDSGR 
      DDPSLQSHT SVTQKTSLE SYNGVVHSG LRRNKTFST 
      FRGADIEEE APADAPWLK DMPDAKSTS EPTTPKFIS 
      IHLNAATPP HKIGRFWQY FECLAKRTL DDSKRLSAY 
      YTSPAREPS ILMELKSSP KKGQGRCIS PCDISNSSL 
      RDVENGAIE DELTTYMKE VKRREIYS
    CDS sequence
    • >TC011171 RA
      atggacgat tactacgtc aataacttc accgtggag 
      tgcaccgag gaggtgatg ggcccgaag agggatagt 
      ttgtacatc gttgtccct attatcgtc atctacggc 
      gttattttc ctcactggg accatcggc aacatcagc 
      acctgcatc gtcatctcc aagaacaag accatgcac 
      acggccacc aactactac ctcttcagc ttggccatt 
      tccgacctt ttgctgctg gtgtccggc ctgccccag 
      gagatctat ctcatttac tcgcgctac ccttacatc 
      ttcgggagc gtcttctgc ttcctgcgg gggatgttt 
      gcggagacg agcgccaac gccacggtg ctgaccatc 
      accgcgttc acagtcgag cgctacttg gccatttgc 
      caccccttt ctctcccac accatgtcc aagctttcc 
      agggctgtt aagatcatc ctggtcatc tggctggtg 
      gccgtgggg ctggcagtg ccccaggcc atgcagttc 
      gaactagtc ggacctaca gattgtgaa cagtgcgct 
      tttgtgaaa cccatcatc cagcattcg ttcgaaatc 
      tccactttg ctgttcttc gtgctgccg atgagtctc 
      atcaccgtg ttgtacatt ctcattgga cagaagctg 
      aagtcgtcc acgatgatg aagaagagg aatgtcttc 
      gggaacgca gccacttcc agggtacac acgaaatcg 
      tcgaggaaa gttgttaaa atgttagtt gctgtcgtg 
      gtggcgttc tttatctgt tgggctcct ttccatgcc 
      cagaggttg tacagtctc tactcaatg aagttcgaa 
      ggactaaat cattccgtc tatttgaag atatacgaa 
      attgtcaca tacataagt gggatcctg tattacatc 
      tcagcgaca ataaatcca atcttgtac aatatcatg 
      tctgtaaag tttcgtgag gcttttagg gaaacgttc 
      tcacggtgc tgctgcttc taccagttc aaggccaac 
      cgaccccaa agatcctat tcagttctc tccaggtcc 
      gcccaacga ggtccagat tctacagac tcagggagg 
      gatgaccct agtctacag tcgcacacc tccgttacc 
      caaaaaaca tccctagaa tcctacaac ggagttgtg 
      cattcggga ctgagaaga aataaaacc ttttcgacc 
      ttccgtggc gccgacatc gaggaggag gccccagcc 
      gacgccccc tggctcaaa gacatgccc gacgccaag 
      tccacctcc gagcccacc acccccaag ttcatatcg 
      attcacctc aacgccgcc acgccgccc cacaaaatc 
      ggccgcttc tggcagtac ttcgagtgt ctggccaag 
      aggacgttg gacgacagc aaacgcctc tcggcttac 
      tacacctcc ccggccaga gagcccagc attctgatg 
      gaactcaaa agcagcccc aagaagggc caaggccgc 
      tgcatcagc ccctgcgac atcagcaac agcagtctg 
      agggacgtt gaaaacggg gccatcgag gacgaactg 
      accacttac atgaaggaa gtgaagcgg agggagatc 
      tacagctag
    mRNA sequence
    • >TC011171 RA
      acctacact gccaaaaat atcgaaata aatcaaata 
      ataacactg caaatagga agtgttcct tttcttctc 
      gaaaactcg aatccgaca tgacctaaa gtccgtgta 
      aacgcttgg cacctgcta acgcctgcc tgtaattaa 
      atcaacaaa aaagcaaaa tttcctgct gaattgttt 
      cctgcgcat gaacccacg ctcttgaat gaaccaagt 
      aaacagtct tcgcagcag tcctgcaac cgcttcgca 
      cgaggcatc cacagcagg aattcctcc gcgcgcgct 
      ttcagcgat gtcctgcaa acttttcca aagttttcg 
      ttcggagtt tccgaacta gtgctcgca atggacgat 
      tactacgtc aataacttc accgtggag tgcaccgag 
      gaggtgatg ggcccgaag agggatagt ttgtacatc 
      gttgtccct attatcgtc atctacggc gttattttc 
      ctcactggg accatcggc aacatcagc acctgcatc 
      gtcatctcc aagaacaag accatgcac acggccacc 
      aactactac ctcttcagc ttggccatt tccgacctt 
      ttgctgctg gtgtccggc ctgccccag gagatctat 
      ctcatttac tcgcgctac ccttacatc ttcgggagc 
      gtcttctgc ttcctgcgg gggatgttt gcggagacg 
      agcgccaac gccacggtg ctgaccatc accgcgttc 
      acagtcgag cgctacttg gccatttgc caccccttt 
      ctctcccac accatgtcc aagctttcc agggctgtt 
      aagatcatc ctggtcatc tggctggtg gccgtgggg 
      ctggcagtg ccccaggcc atgcagttc gaactagtc 
      ggacctaca gattgtgaa cagtgcgct tttgtgaaa 
      cccatcatc cagcattcg ttcgaaatc tccactttg 
      ctgttcttc gtgctgccg atgagtctc atcaccgtg 
      ttgtacatt ctcattgga cagaagctg aagtcgtcc 
      acgatgatg aagaagagg aatgtcttc gggaacgca 
      gccacttcc agggtacac acgaaatcg tcgaggaaa 
      gttgttaaa atgttagtt gctgtcgtg gtggcgttc 
      tttatctgt tgggctcct ttccatgcc cagaggttg 
      tacagtctc tactcaatg aagttcgaa ggactaaat 
      cattccgtc tatttgaag atatacgaa attgtcaca 
      tacataagt gggatcctg tattacatc tcagcgaca 
      ataaatcca atcttgtac aatatcatg tctgtaaag 
      tttcgtgag gcttttagg gaaacgttc tcacggtgc 
      tgctgcttc taccagttc aaggccaac cgaccccaa 
      agatcctat tcagttctc tccaggtcc gcccaacga 
      ggtccagat tctacagac tcagggagg gatgaccct 
      agtctacag tcgcacacc tccgttacc caaaaaaca 
      tccctagaa tcctacaac ggagttgtg cattcggga 
      ctgagaaga aataaaacc ttttcgacc ttccgtggc 
      gccgacatc gaggaggag gccccagcc gacgccccc 
      tggctcaaa gacatgccc gacgccaag tccacctcc 
      gagcccacc acccccaag ttcatatcg attcacctc 
      aacgccgcc acgccgccc cacaaaatc ggccgcttc 
      tggcagtac ttcgagtgt ctggccaag aggacgttg 
      gacgacagc aaacgcctc tcggcttac tacacctcc 
      ccggccaga gagcccagc attctgatg gaactcaaa 
      agcagcccc aagaagggc caaggccgc tgcatcagc 
      ccctgcgac atcagcaac agcagtctg agggacgtt 
      gaaaacggg gccatcgag gacgaactg accacttac 
      atgaaggaa gtgaagcgg agggagatc tacagctag 
      cagaggttg tacaacgag atcaagttg gcgaaaagg 
      gaattatga ttttttgga aaaattcta aatgtttcg 
      taggtgttt taatgtgat aagtgtttt agatgacac 
      aacgagccc aattttttt atatacata catagatgc 
      ttgcacacc tactgtcac ttgattttt tccaattta 
      ccacattct tgccgcatt tggtgctca tgttattct 
      agtcaatat tgttacttg cgttaggtt aaacagtta 
      aacattgtt gagtctgta aataattgt agatcgagt 
      gttacttct ttgttgaat taataaaaa acgagtatt 
      tttcatttg tatgatgac gtattttaa tgtgataat 
      atttgtata attgtatac tttaataaa gtgttgatt 
      acaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY