Status
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Gene information
General information
TC006102 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: 2463118..2466682
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
    		TC006102
    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
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    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_00994

    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

    Fertility
    previtellogenic egg chamber complete not present - Number of animals showing the phenotype: 4
    vitellogenic egg chamber mostly not present - Number of animals showing the phenotype: 4

    Comment: proocytes seem completely absent and number of follicle cells is increased
    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: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    delayed (still larva) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 8 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006102 RA
      MSSHLQGGR VDISLIQTA ARNNLITLL EKCPGPKAI 
VWDNSLAGP VGLIAQYAV LKEHSVTKM FPLRPTPLP 
ETDVAHVIF ITRPKLHLM DFVGYNVHA DCKTKTGSK 
KQYHVFFVP KKSLLCLER LKHNGVYGS VSLVEEFRC 
ELFPFDSDV VSMEISEVF REYTLENDP TYLYQTAQA 
IIFLQKLYG PIPRVWGKG PAARQVWEL VTRLQREKN 
APLKTNQTS TIDQILLID RGVDLITPL ATQLTYEGL 
IDEIFGINN STAQFPIDN FLSSEERTS ESLSEDKKQ 
IILNSADKL FADIRDKNF NAVGAFLSK QAKAISVQL 
DNSQERSVQ EMKLYVQKL PQILAKKKA LAHHTAIAE 
CIKEVTDGY EFLDTLQTE QEFLNCIEV DKASPYIED 
LIAHAKPLV KVLRLICLQ CITSSGLKP KVLEHYKRE 
LVQVYGLQA LLAITNLEK VGLLKVQSG TRQYTVLRK 
ALRLTMEDT SEINPTDIS YVHSVYAPL SVRLAEQVT 
KNGGWKQLQ DVLGLLPGP TLDETPPIP NCLAPNNSD 
TPSVVLVFF IGGCTFAEI SALRFLSQQ EDSNVEFVI 
ATTKLINGT NFLKSIIDV
    CDS sequence
    • >TC006102 RA
      atgtcatct catttacaa gggggccgc gttgacata 
tccctcatc caaacggcg gcccgtaac aacctcatc 
accctcctg gagaaatgc ccaggcccc aaagccatc 
gtttgggac aactcgctt gcgggcccc gtgggactc 
atcgcccaa tacgcagtc ttgaaggaa cattcggtc 
actaaaatg ttccccctg cgccccaca ccactccca 
gaaacagac gtagcccac gttatcttc ataacgcgc 
cccaaactg cacctaatg gactttgtg ggctacaac 
gtccacgcc gactgcaag accaaaacc ggctccaaa 
aagcaatac cacgtgttt ttcgtcccg aaaaagagc 
ctcctgtgt ctggagcgc ctcaagcat aacggagtg 
tacggcagt gtgagttta gttgaagag ttccgctgt 
gagttattc ccgtttgac tccgatgtt gtctcgatg 
gaaatttct gaagttttc cgcgagtac acgcttgaa 
aacgacccg acttatttg taccaaacg gcacaggcg 
atcattttt ttgcaaaaa ttgtacggc cccattccg 
cgcgtgtgg ggcaaaggc ccggccgcg cgccaggtg 
tgggagctg gtgacgcgg ctccagcgc gagaagaac 
gcccccttg aagacgaat cagacgtcc accatcgac 
cagatcctg ctgattgac cgcggggtg gacctgata 
acccccttg gccacgcaa ctgacctac gaggggctc 
attgacgag attttcggc ataaataac tcgactgcc 
cagttcccc attgacaat ttcttgagc agcgaagag 
cgcacctct gagtcgctc tccgaagac aagaaacaa 
atcatcttg aattcagcc gacaagtta tttgccgac 
atccgcgat aagaatttt aacgccgtg ggggcgttt 
ttgtcgaag caggcgaag gcgatcagt gtgcagttg 
gataatagt caggagcgg tccgtgcaa gagatgaag 
ttatatgtg cagaagctg ccgcagatt ttggccaag 
aagaaggct ttggcgcat cacacggcc attgcggag 
tgcattaaa gaagtgact gatggttac gaatttttg 
gacacgcta caaacggaa caggagttt ttgaattgc 
attgaagtg gataaagct agtccgtat atcgaggat 
ttgatcgca catgccaag cctctggtc aaggttttg 
agactgatt tgtttgcag tgtattacc agctcgggg 
ctcaagccc aaagtgctg gagcattac aagagggag 
ctggttcag gtgtatggc ttacaagcg ctcctcgcc 
atcacaaac ctggaaaaa gtgggcctt ttaaaggtc 
caatcagga acccgacaa tacacagtc ctacgcaaa 
gccctaaga ctcacaatg gaagacaca tctgaaata 
aacccaact gacataagc tacgtacac agcgtttac 
gccccctta agcgtacgc ctagccgaa caagtaacg 
aaaaacggg ggctggaaa caactacaa gacgttttg 
gggctttta ccgggcccc acacttgac gaaacgccc 
cctatccca aactgttta gccccaaat aactcggac 
acgccgtcc gtggttctg gtctttttt attgggggc 
tgcacattt gcagagatt tcggccttg aggtttttg 
tcacaacaa gaggactcg aacgtcgag tttgtgatc 
gcgacgacg aagctgata aatgggacc aattttttg 
aaatctatt attgatgtg taa
    mRNA sequence
    • >TC006102 RA
      tgatttata aataagccc ccgtagagg cttccaaaa 
attgccgta gcgcacggt atttcacgt gcacatggc 
ggggtattg gttaaagtt ttcaactag caataatcg 
cacctcgga tttacctca tcggttacg atactgcca 
ctgcgcaaa gctgacaaa cttaccccc taccaattc 
atttaaagc cacgaggac ggcaaacgt tcatgaatc 
ataaacctt agcgccatc tcgcaccac tccttcgaa 
cattgcaaa ataaaacaa ccccaaagg cccacaatc 
acccaaatc cccaatttt gtcatcgcc ccaaaattg 
taaatcacc ccattgtca ccacatgtc acagtgaca 
gctaacctc aaacaactg tcacagtga cagctaacc 
tcgaaaatg tcatctcat ttacaaggg ggccgcgtt 
gacatatcc ctcatccaa acggcggcc cgtaacaac 
ctcatcacc ctcctggag aaatgccca ggccccaaa 
gccatcgtt tgggacaac tcgcttgcg ggccccgtg 
ggactcatc gcccaatac gcagtcttg aaggaacat 
tcggtcact aaaatgttc cccctgcgc cccacacca 
ctcccagaa acagacgta gcccacgtt atcttcata 
acgcgcccc aaactgcac ctaatggac tttgtgggc 
tacaacgtc cacgccgac tgcaagacc aaaaccggc 
tccaaaaag caataccac gtgtttttc gtcccgaaa 
aagagcctc ctgtgtctg gagcgcctc aagcataac 
ggagtgtac ggcagtgtg agtttagtt gaagagttc 
cgctgtgag ttattcccg tttgactcc gatgttgtc 
tcgatggaa atttctgaa gttttccgc gagtacacg 
cttgaaaac gacccgact tatttgtac caaacggca 
caggcgatc atttttttg caaaaattg tacggcccc 
attccgcgc gtgtggggc aaaggcccg gccgcgcgc 
caggtgtgg gagctggtg acgcggctc cagcgcgag 
aagaacgcc cccttgaag acgaatcag acgtccacc 
atcgaccag atcctgctg attgaccgc ggggtggac 
ctgataacc cccttggcc acgcaactg acctacgag 
gggctcatt gacgagatt ttcggcata aataactcg 
actgcccag ttccccatt gacaatttc ttgagcagc 
gaagagcgc acctctgag tcgctctcc gaagacaag 
aaacaaatc atcttgaat tcagccgac aagttattt 
gccgacatc cgcgataag aattttaac gccgtgggg 
gcgtttttg tcgaagcag gcgaaggcg atcagtgtg 
cagttggat aatagtcag gagcggtcc gtgcaagag 
atgaagtta tatgtgcag aagctgccg cagattttg 
gccaagaag aaggctttg gcgcatcac acggccatt 
gcggagtgc attaaagaa gtgactgat ggttacgaa 
tttttggac acgctacaa acggaacag gagtttttg 
aattgcatt gaagtggat aaagctagt ccgtatatc 
gaggatttg atcgcacat gccaagcct ctggtcaag 
gttttgaga ctgatttgt ttgcagtgt attaccagc 
tcggggctc aagcccaaa gtgctggag cattacaag 
agggagctg gttcaggtg tatggctta caagcgctc 
ctcgccatc acaaacctg gaaaaagtg ggcctttta 
aaggtccaa tcaggaacc cgacaatac acagtccta 
cgcaaagcc ctaagactc acaatggaa gacacatct 
gaaataaac ccaactgac ataagctac gtacacagc 
gtttacgcc cccttaagc gtacgccta gccgaacaa 
gtaacgaaa aacgggggc tggaaacaa ctacaagac 
gttttgggg cttttaccg ggccccaca cttgacgaa 
acgccccct atcccaaac tgtttagcc ccaaataac 
tcggacacg ccgtccgtg gttctggtc ttttttatt 
gggggctgc acatttgca gagatttcg gccttgagg 
tttttgtca caacaagag gactcgaac gtcgagttt 
gtgatcgcg acgacgaag ctgataaat gggaccaat 
tttttgaaa tctattatt gatgtgtaa atatttttt 
atttaattt ttctaataa cgtataggg ctttcaagt 
aaatttctg a

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY