Status
Please wait ...
Gene information
General information
TC012475 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_007424.3: 8778875..8783091
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
    		TC012475
    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_05247

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    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): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     labrum irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    labrum size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    labrum position irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    antenna irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    antenna orientation irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    antenna size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    head shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    legs shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    legs pretarsus bent - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012475 RA
      MGCDGGTIP RRNELVKVK QKPETKDHT 
SHLIFQWRY CNLSQQLLQ RPIVTCGLG 
KLYNKSAII EAMINKESL PNHIKTLKD 
VLDLNLTRN PEFREDAIM RIEISPYIC 
PVTGLEMSG KFRFVALWS CGCVFAERA 
LKNVEMKAC PKCQKCFDK SDILELNPD 
FSAEETMKE RMEVRKRRK KSAKRVIKK 
K
    CDS sequence
    • >TC012475 RA
      atgggttgt gacggtggg acaatcccc cgccgaaac 
gaattagtt aaagtcaaa cagaaaccc gaaacgaaa 
gatcacacc tcccattta atttttcaa tggagatat 
tgcaatcta agccaacaa ctcctccaa cgccctatt 
gttacatgt ggtttgggc aaactctac aacaaatcg 
gcgataatc gaagcaatg atcaataaa gaatcgctc 
ccgaatcat atcaaaacc ttgaaagat gtccttgat 
ttgaatcta acccggaat ccggaattt cgcgaagat 
gcaatcatg cgaattgaa atttcgccc tacatttgc 
ccagtgaca gggctggaa atgtccgga aaattccgg 
tttgttgca ctgtggtct tgcgggtgt gtttttgcc 
gaaagggct ttgaaaaat gtggaaatg aaagcgtgt 
cccaagtgc cagaagtgt ttcgataag agtgatatt 
ttggagctg aatcctgat ttcagcgca gaggaaacg 
atgaaagag aggatggaa gtgaggaaa aggcggaaa 
aagagcgca aagagagtg attaaaaaa aagtaa
    mRNA sequence
    • >TC012475 RA
      ttgatccac cataaaatt atcaagtat gagtgtcat 
cagcatttt tcctgtcaa tgtcacttt gacattaat 
cacaacttg tcggtgctt tggaatggg ttgtgacgg 
tgggacaat cccccgccg aaacgaatt agttaaagt 
caaacagaa acccgaaac gaaagatca cacctccca 
tttaatttt tcaatggag atattgcaa tctaagcca 
acaactcct ccaacgccc tattgttac atgtggttt 
gggcaaact ctacaacaa atcggcgat aatcgaagc 
aatgatcaa taaagaatc gctcccgaa tcatatcaa 
aaccttgaa agatgtcct tgatttgaa tctaacccg 
gaatccgga atttcgcga agatgcaat catgcgaat 
tgaaatttc gccctacat ttgcccagt gacagggct 
ggaaatgtc cggaaaatt ccggtttgt tgcactgtg 
gtcttgcgg gtgtgtttt tgccgaaag ggctttgaa 
aaatgtgga aatgaaagc gtgtcccaa gtgccagaa 
gtgtttcga taagagtga tattttgga gctgaatcc 
tgatttcag cgcagagga aacgatgaa agagaggat 
ggaagtgag gaaaaggcg gaaaaagag cgcaaagag 
agtgattaa aaaaaagta aaagtttag ttcatagtt 
gaaattcgc agtgactat cgccacatt agcaaccac 
atgtcgtgt catatcttt aaaatatgt gtctgtatc 
cggtggaga taccacatg gatgtttcc cgtaacgaa 
ttatcatcc aacatggaa aaagtcttt tccaatcga 
acgatccaa tgagattat cagcaattt aattggtgt 
ttgttgctc catacagat agttaactc gagtttatc 
acagaaata gcttcaata attatgttt gcgatgtgt 
attaaataa atcactacc caactgata acttatcga 
gtttattac ttattttga acgaccttt tggtacaaa 
tatagcctt aaacatggt aaacaggca agaggttat 
caccgatct aaaaataat tgatataaa agtgcaaac 
ggaaaatta ttgggtgaa caaacccaa aaaatcaat 
taaaacgag gctgctacc caaacccgt aattatgga 
aaatatcgc ttcatctaa tacgaattt aaaagcttc 
atttacaaa ccggtactt aaaaatgtg tttatgcta 
cttgcattt tcaaaatat tttaattac acaacacca 
cttgttgaa atacttacg tgtacaaga gtgcgacat 
gtttggagt ggcttacaa taacaaaca aggcctaaa 
aaattaaac agtggcgga actaacaca agaaagcgt 
cttgaagtt actcgccct tttagtcat caattgtgc 
gtaaataat tttagttaa accaaaagt taataaaag 
tcatttaat tttcttaat taatttcat ttattttta 
tgtaattct ataatttgt gttcttttt tatcattcc 
ataagtttt tacgtttaa acacagtcg gtataaata 
attgtagca tcctagttg cttgtgata aggaaactt 
ggtggtcgg cttttgaca ataatgatt tttatctgt 
aactaatga cttttcgta acactgacg tgtccacat 
tttctgtca gaatttgtc gaatttcac tcaaattct 
tgtttcagt tactttacc aaaatcata cttttttat 
taattttat ttgcaattt gctgaaagc ggcacattt 
ttcagctcg ctacagtca ctttatcat caatcattt 
ataatgact ttaattaaa acacaatat aaaaaatct 
tgagagcac ggtgtgcat tttaaatgt gtagttatt 
ttccaggag ttaaaaaac aatttaaaa gaatatatt 
tttaatatc ttttgtagc ccctggttc gattgtaaa 
gtctgaggg caaaatgtt cacttccgc aaattcttc 
gaaataaat aaattacaa acttaatca ccgttaaga 
aaccataaa atagcaaaa tcgtattgc ttttgcact 
aaattgtga tgacaataa ttaatggtg acaaagtct 
tcgagaatt aattaattt acttagatt ttcaaatta 
acttaactg tgcataatg gaagaaata ggagtatgt 
acagggttg ggcaactct tacgaccag ttcgaaaat 
tgcgatttc taattaaat aaaatatcg tgaaacgac 
acaactgaa ggatgtaag gttaattga catttattc 
ttcgacatt gtcaaaatt tccgggttt tctcctctg 
taggacagt tttgacaac tgtttgcca tttctcggt 
acgaaacgt cagattatt tttaataaa tttaaagca 
attttaagt cttgttgag tctaattcg aagaataaa 
attttgtat ttcacttgt tttcgagta aatcggttc 
atttattta cctcgtgga tgataaaac tccttaaat 
aaataactg tttggtaat cttttgcta aaatgccaa 
aactaaaag gaattttta cccaaaagg taaaattct 
cgtttttcg atgaattgt ttacgaaat cgtctcact 
tttacagtt tacattatt ttcatttat tgactgttg 
agttgagca gcgtaaatt tgacaacgg gaactgtaa 
taactggtg aattgctgt atgcaaatc tatggtaaa 
ataaggggc ttcaagaag gttgcattt aaataaaaa 
ttacgttta aattaaatc tgtaactga tcagctaaa 
gattcatgg ttggttttt aggttaata agtcagtgc 
caaaaaact caaaaaact cgtagtctt atttattat 
caaaaaatg aaaaaccaa atgtgcgaa atttcgaca 
attttgatt ttaaatgcc tagcctcta atagtatat 
tgtggataa cccagttac tgagcaaat taagaaatc 
attaaaaat gtgagaaaa tctcttatt ttgtatcat 
tgacccgaa gccttggca aaaatcttc tcgtggtgg 
attggagcc cggaggaca tctttacct gacagtatt 
agaagtata aaatgtaat ctaatgctg cccggtaag 
atgttaaca gtactcctg aaaagacac cttcttcag 
catcttctc tgattccca gatcattat gaagcaaat 
tcctcaagt ctcacaaat tgcgatttt atgctggta 
cattgttaa ttcaatgct gcacttgta gcgacgtgt 
tgattcgag ctcgtgggc ggaaaacac acaaatcga 
atgaatttt tttctagtt gattgcagc acaaatacc 
acgactgac ttattactg aattaagca gtttaataa 
taacaaaat cgatccgaa atgacttac ataagtaaa 
ttacagcgt tgacgcagc tactttaac ctttacgtt 
tgggttacc gttgatttg ttaataatt aaacgggga 
aacaacccg gtaatgaaa ttaagtcgt ttgtgaaat 
ctttgtttt gttagacaa ccagccatg cgtcgcgtt 
agtgtgccc ccgactgca ctttttgta aaaccgcca 
cagtgttgc ttgcgagta ataaagtcg gagcagttt 
ggaagtcat taaatatcg tcaggtgaa tttgtctct 
ggaaaccag ttaggtagg cagtcttgt tacgtaaac 
cgtaaatat attccgtcg ccgagatct ccgatcggt 
ccttttaca gtgccgttt taccgaatt tatcgccga 
gaaaataat ctcgtgtca cactcaccg caattgcca 
aatcacgta tccgtcctt aaggtcgtc ctgcaacaa 
aacaatcgt agatgagaa attcggaat cggcaattt 
aaggtcatc tcgcgaatg tttagttac tctcactaa 
aataattat gaaatctgg taaatttat atgcaaatg 
caacgatgt tagccgcgt tgcgcaaca cgtttctaa 
attatttct aggatttat aaatattta ttcgattct 
tgtataatt tggaagcct ttccaaatg ttaagtgcg 
gactgctca ctccaattt cgcaggttt ttcgatttt 
tgcgtcgag cgcattctg aagcccaga atacgacat 
gaaaccgtg ccaaatgtc ccgccgtta gtcaaaacg 
cccgctagt gacaggcca taaagtccg caacgattt 
tcaaaaaca cattgttag cccaataaa caattcgtt 
tattt

    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