Status
Please wait ...
Gene information
General information
TC007193 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_007419.2: 7843781..7847973
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
    		TC007193
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01141

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    head shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (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
    • >TC007193 RA
      MASIRIHQD QENRVPELR RKPGTTAQQ KRGVLGEID 
SNKVNNAAL KGKQTKKPT VLGNRVENG QKNENKKNV 
VVPVAQFEA FTVYEDDEY RARIDERLK LISKSNVYK 
GTAEDRFIT KTELAEIER KKNLEKLKE ITAPQLKRK 
SEIPMSIEK SDVENIELK EQTVSTSTN ARDVFFEME 
EYRDSIFAY LKEHELRHR PKPGYIVKQ PDVTENMRA 
VLIDWLVEV TEEYGMQTE TLYLAVNFI DRFLSYMSV 
VRAKLQLVG TAAMFIASK YEEIFPPEV SEFVYITDD 
TYDKHQMIR MEQLILRVL GFDLSVPTP LTFLNAICI 
STKQTEKVK NLAMYLSES ALLEVEPYL QFLPSVVAS 
SAIALSRHT LGEEAWPGD LQKYTGYNL KKLESCIGF 
LYKMFAKAP SNPQHAIRD KYKAPKYMQ VSKISPSGE 
MISFD
    CDS sequence
    • >TC007193 RA
      atggcatcg ataagaatt caccaggac caggaaaac 
cgggtgccg gaattgcgc cgaaaaccg ggaacgact 
gcccagcaa aaacggggc gttctgggc gagattgac 
agtaataaa gttaataac gcagccctt aaaggaaaa 
cagacgaag aagccaacc gttttggga aaccgggtg 
gaaaatggg caaaaaaac gagaataag aagaatgtc 
gtggttccg gtggcccag tttgaggcg tttactgtg 
tatgaggat gatgaatac agagcgaga atcgatgaa 
aggctcaaa cttatcagt aagagtaat gtgtataaa 
gggacggcc gaggacagg tttatcacg aagacagaa 
cttgccgaa attgaaagg aaaaagaat ttggagaaa 
ttgaaggaa attactgcg cctcaactt aagagaaaa 
tcggagatt ccgatgagc attgagaaa tcagatgtg 
gagaacatt gagctcaaa gagcaaacg gtttccaca 
agtaccaat gctagagat gtctttttt gaaatggag 
gagtatagg gatagcatt tttgcttat ctcaaagaa 
catgagctg cgacatcgg ccaaaaccc ggctacatc 
gtgaaacag cctgacgta actgaaaac atgcgtgct 
gttttgatc gattggctt gtcgaagtt actgaagag 
tacggtatg caaacggaa accctttat ttggccgta 
aatttcatc gaccgattt ttaagttac atgtctgta 
gttagggcc aaattgcaa cttgtgggt acagctgca 
atgtttatt gcttctaaa tacgaggaa atttttcca 
ccagaagtc agcgaattc gtgtacatc actgacgac 
acttacgac aaacaccaa atgattaga atggaacag 
ttaattctg agggtgttg ggcttcgat ttgtcggtg 
cccacacca cttactttc ctaaacgcc atttgcatt 
tccacaaaa caaaccgaa aaagtgaag aatctcgcg 
atgtattta agcgaatcg gcgcttctg gaggtcgaa 
ccgtattta cagtttttg ccgtcagtt gtcgcgtcg 
tcggcgata gctctcagc agacacact ttgggcgaa 
gaagcgtgg cctggcgac ttgcaaaaa tacacagga 
tataatttg aaaaaatta gaatcttgt attggattc 
ttgtataaa atgttcgcc aaagcgcca tctaatcca 
caacacgcc attcgggac aagtacaag gcgccaaag 
tatatgcaa gtttctaag attagtccc agcggtgag 
atgatttcg ttcgattaa
    mRNA sequence
    • >TC007193 RA
      tgacgttgc ttaaatctg ggctcccat tggtcccgt 
ttgtcattt caacggtct ctcagctgt tcgtttccc 
gcactctgc gctctttgc atctggccg ttaaaaaca 
gtcgttttg tcggttagg ggtagcttg ggtgtttaa 
gttggggtt cagtttggc cttcggttc agcaaactt 
ttcgttttt cgggtatta gaaacttgc acgtgtgtt 
agaggaatg gcatcgata agaattcac caggaccag 
gaaaaccgg gtgccggaa ttgcgccga aaaccggga 
acgactgcc cagcaaaaa cggggcgtt ctgggcgag 
attgacagt aataaagtt aataacgca gcccttaaa 
ggaaaacag acgaagaag ccaaccgtt ttgggaaac 
cgggtggaa aatgggcaa aaaaacgag aataagaag 
aatgtcgtg gttccggtg gcccagttt gaggcgttt 
actgtgtat gaggatgat gaatacaga gcgagaatc 
gatgaaagg ctcaaactt atcagtaag agtaatgtg 
tataaaggg acggccgag gacaggttt atcacgaag 
acagaactt gccgaaatt gaaaggaaa aagaatttg 
gagaaattg aaggaaatt actgcgcct caacttaag 
agaaaatcg gagattccg atgagcatt gagaaatca 
gatgtggag aacattgag ctcaaagag caaacggtt 
tccacaagt accaatgct agagatgtc ttttttgaa 
atggaggag tatagggat agcattttt gcttatctc 
aaagaacat gagctgcga catcggcca aaacccggc 
tacatcgtg aaacagcct gacgtaact gaaaacatg 
cgtgctgtt ttgatcgat tggcttgtc gaagttact 
gaagagtac ggtatgcaa acggaaacc ctttatttg 
gccgtaaat ttcatcgac cgattttta agttacatg 
tctgtagtt agggccaaa ttgcaactt gtgggtaca 
gctgcaatg tttattgct tctaaatac gaggaaatt 
tttccacca gaagtcagc gaattcgtg tacatcact 
gacgacact tacgacaaa caccaaatg attagaatg 
gaacagtta attctgagg gtgttgggc ttcgatttg 
tcggtgccc acaccactt actttccta aacgccatt 
tgcatttcc acaaaacaa accgaaaaa gtgaagaat 
ctcgcgatg tatttaagc gaatcggcg cttctggag 
gtcgaaccg tatttacag tttttgccg tcagttgtc 
gcgtcgtcg gcgatagct ctcagcaga cacactttg 
ggcgaagaa gcgtggcct ggcgacttg caaaaatac 
acaggatat aatttgaaa aaattagaa tcttgtatt 
ggattcttg tataaaatg ttcgccaaa gcgccatct 
aatccacaa cacgccatt cgggacaag tacaaggcg 
ccaaagtat atgcaagtt tctaagatt agtcccagc 
ggtgagatg atttcgttc gattaaaag actgctcta 
cttcgtagg gaacaaagg ccttgcgtt tttttttct 
ggtctagtt tttattatt agatttatt aattagatg 
gtaataatt tatagtaag ctgtgctgt ggtgtccca 
ttcatgtgt actgtcgac catcaatat tattttagt 
ttgcatggt tttatttac tgtctttta tgtgttatt 
ttatttgga tttacgtat tttgaattt atactctcg 
ttgaaacta ccttgtttc ctaaacatt gtacagttt 
atttatttg ttataagta gttaagaat caaacaaac 
gaattgctg ccattcctt tataacaaa atggacgaa 
attgtcaat aacaatttt tgatatttt tctatacgc 
aataaattg tggaactac aa

    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