Status
Please wait ...
Gene information
General information
TC008460 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: 10915505..10917208
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
    		TC008460
    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_04496

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008460 RA
      MSVQVLKEI FTKSVESVQ PQNLITKQV SVSSGHLTV 
CGHTYPLHK PCYVVGFGK AVLGMALEL EKLLKDKLK 
MGVVTVPKG IFENLEIQS SIKFIEGAR NNIPDEEAL 
SGALEIKAL VESLEKDDL LIVLISGGG SALLPLPRP 
PVTLTEKQN LIRELSTRG ADILELNCV RKQISVLKG 
GGLAELAFP SRVISLILS DVVGDPLDF IASGPTTPN 
CDNGKDAIT IINKYKCYE GLSAAMRAV LGQKRENCY 
FPPVKDGKY EHVDNFVIG NNQIAAEAA RQHAASFGF 
QSTIISTSV TGNVAQISQ IYADLARTI CNSSSKQTL 
KDFLETCGL CVDPSAVDT LISFDLAKE ICVIAAGEP 
TVVVNGSGK GGRNQQLAL ELSVRLNKL NIKSADISF 
LSAGTDGID GPTDAAGAI GTSDLVNNS LEENIKPDD 
YLNNNDSYT FYSKYLQGE HLIKIGHTG TNVMDIHVM 
LIKPKRK
    CDS sequence
    • >TC008460 RA
      atgtcagtg caagtgctc aaagaaata tttacaaaa 
tcggtggaa tctgtccaa cctcaaaac cttatcact 
aaacaagtg agcgtcagc tctggccat ctaacggtt 
tgtggccac acttacccg ttacacaaa ccttgctac 
gtggtagga ttcggcaaa gctgtgtta ggcatggct 
ttagagctt gagaagtta ctaaaggac aaactgaag 
atgggggta gtaacagta ccaaagggg atatttgaa 
aatttagaa attcaatca agcattaaa tttatcgaa 
ggtgcaagg aataatatt cccgatgag gaagctttg 
agtggagct ttagagatt aaagctctc gtggagagt 
ttagaaaag gacgacttg ttgatagtt ttgatatct 
ggcggaggc tcggcttta ctgcccctt cccagacct 
ccagtcacc ttgacggag aagcagaat ttgattagg 
gagctatcg actcgagga gcggatatt ttagaactt 
aattgtgtc cgcaagcaa atatcggtg ctaaagggt 
ggaggattg gccgagttg gcctttccg tctcgagtt 
atctcgttg attctgtcc gacgttgtt ggggaccct 
ctggatttt atcgccagc ggtccaact acccccaat 
tgtgataat ggcaaagat gccatcaca atcatcaac 
aaatacaag tgttacgag ggcctttcg gccgcgatg 
cgagccgtc ctaggccag aaaagagaa aattgctat 
tttccgcca gttaaagac ggcaaatac gaacacgtc 
gataatttc gtaatagga aacaatcaa attgcggcg 
gaagcggcc cgccaacac gcagcttct ttcggtttt 
caatcaaca ataatatca acttcggta accggcaat 
gtggcgcag ataagtcaa atttacgcc gatttggca 
cgcaccatt tgcaattca tcgagcaaa caaacgctg 
aaagatttc ctggagacg tgcgggttg tgcgtcgat 
cccagcgct gttgatact ctaattagc ttcgatttg 
gccaaagag atttgtgta atagccgct ggtgagccg 
actgttgtg gtcaatggc agtggaaaa ggaggacgc 
aaccaacaa ttagcttta gagctttcg gttcgactt 
aataagctt aacataaaa tcggcggat atttcattt 
ctcagtgcg ggaacagat ggaatagac ggcccaact 
gacgccgct ggagcaatt ggaacttcg gatttagtt 
aataatagt ctcgaggag aatattaaa cccgacgat 
tatttaaac aataacgat tcttacacg ttttattcc 
aaatacttg caaggggaa catcttatc aaaattgga 
cacacgggc accaacgtt atggacata cacgtaatg 
ctcataaaa ccgaagcgg aagtga
    mRNA sequence
    • >TC008460 RA
      gacagtgtt ctacaccaa gtttttata ggcttccgt 
attaccaaa aggtggcac taaaagaga gaaacacac 
atgaaacat atcttatct gacctttaa ggtcactag 
ttgccatgc ttaattcag tgaagtttt ccgtgttaa 
atagtcact taaacgtaa gaaaaatgt cagtgcaag 
tgctcaaag aaatattta caaaatcgg tggaatctg 
tccaacctc aaaacctta tcactaaac aagtgagcg 
tcagctctg gccatctaa cggtttgtg gccacactt 
acccgttac acaaacctt gctacgtgg taggattcg 
gcaaagctg tgttaggca tggctttag agcttgaga 
agttactaa aggacaaac tgaagatgg gggtagtaa 
cagtaccaa aggggatat ttgaaaatt tagaaattc 
aatcaagca ttaaattta tcgaaggtg caaggaata 
atattcccg atgaggaag ctttgagtg gagctttag 
agattaaag ctctcgtgg agagtttag aaaaggacg 
acttgttga tagttttga tatctggcg gaggctcgg 
ctttactgc cccttccca gacctccag tcaccttga 
cggagaagc agaatttga ttagggagc tatcgactc 
gaggagcgg atattttag aacttaatt gtgtccgca 
agcaaatat cggtgctaa agggtggag gattggccg 
agttggcct ttccgtctc gagttatct cgttgattc 
tgtccgacg ttgttgggg accctctgg attttatcg 
ccagcggtc caactaccc ccaattgtg ataatggca 
aagatgcca tcacaatca tcaacaaat acaagtgtt 
acgagggcc tttcggccg cgatgcgag ccgtcctag 
gccagaaaa gagaaaatt gctattttc cgccagtta 
aagacggca aatacgaac acgtcgata atttcgtaa 
taggaaaca atcaaattg cggcggaag cggcccgcc 
aacacgcag cttctttcg gttttcaat caacaataa 
tatcaactt cggtaaccg gcaatgtgg cgcagataa 
gtcaaattt acgccgatt tggcacgca ccatttgca 
attcatcga gcaaacaaa cgctgaaag atttcctgg 
agacgtgcg ggttgtgcg tcgatccca gcgctgttg 
atactctaa ttagcttcg atttggcca aagagattt 
gtgtaatag ccgctggtg agccgactg ttgtggtca 
atggcagtg gaaaaggag gacgcaacc aacaattag 
ctttagagc tttcggttc gacttaata agcttaaca 
taaaatcgg cggatattt catttctca gtgcgggaa 
cagatggaa tagacggcc caactgacg ccgctggag 
caattggaa cttcggatt tagttaata atagtctcg 
aggagaata ttaaacccg acgattatt taaacaata 
acgattctt acacgtttt attccaaat acttgcaag 
gggaacatc ttatcaaaa ttggacaca cgggcacca 
acgttatgg acatacacg taatgctca taaaaccga 
agcggaagt gaatgctaa aaggaagcc agcggctcg 
atgaatgct tgaacagtt caaatccaa aaatttatt 
tttaatgtt tcctcgact tgctggttt caataaaac 
tttggcgct ctg

    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