Status
Please wait ...
Gene information
General information
TC013564 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_007420.3: 7922916..7928390
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
    		TC013564
    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_08269

    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: 80.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 7 (3 dpi)
    Days post injection

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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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: % (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
    • >TC013564 RA
      MSSRSDSDS ESNRSASPI NTGPAPTPG HGLDRSASN 
SPQYTQGSP ERAGSRTSG SPASSARSR SPSAESNKS 
TASQRTAAS NTSRKSRSR SVASNRSRG SQSAESNRS 
GSNRSESPP GSRRSRSSS AGSKKSRSR SGSAASNKS 
GSAASSKSR SRSGSAASN RSRSKSAGS NRSRSKSAG 
SNRSRSKSA GSNRSRSKS AESNRSRRS RSRSRSQSQ 
EKRPESGGR SRSNSPNLQ IDEPGSPES GKGDKRKRD 
SSEERTSKK KHRIIDSDS EGEEGKEND KEVSAAAIF 
GDDADDISS EEEKEKAES EKEAQASEE EQHHSEEEH 
EQRQPDEDE DKENEPEQI PETRIDVEI PKISCDLGR 
DIHFVKLPN FLSVETRPF DPETYEDEI DEEETLDEE 
GRARLKLKV ENTIRWREA VDKEGNVKK ESNARLVRW 
SDGSYSLHL GSEIFDVYK QPLQGDHNH LFIRQGTGL 
QGQAVFRTK LSFRPHSTE SFTHRKMTL SLADRSQKT 
SGIKILSQV GADPDHDRK LLLKKEEEK LRQTVRVSK 
PRRKGDSGT RSHNSSVYR EEDGSDEEG AISLNAIKN 
KYKSGAATV AKGGAIYSS DEEGSDIEA RRARKIDKA 
KALKDSESS EESE
    CDS sequence
    • >TC013564 RA
      atgtcttca cggtctgac tccgatagc gagtctaac 
agaagtgcg agccccatc aacaccggc cccgcgccc 
acgccgggc catggcctt gaccgctcc gcgtccaat 
tcgccccag tacacgcag gggtccccc gaacgggct 
ggaagtcgg acgtccggc agccccgcg tccagcgca 
aggtcgcgc tcgccctcc gccgaatca aacaagtcc 
accgcgtcc cagagaaca gccgcctca aacacttcc 
cgaaaatcg aggtctagg agtgtagcc tcgaacagg 
tctcgcggc tcacagagc gccgagtca aacagatcg 
ggctcgaat cgctcagag tcgccccct ggctcacgt 
aggtctagg tcgagtagt gcagggtcg aaaaagtcg 
aggtcgagg tctgggagt gcagcgagt aataagtcg 
gggagtgcg gcgagtagc aagtcgagg tctaggtcg 
gggagtgcg gcctcgaat aggtccagg tcgaagagt 
gcgggctcg aataggtcc aggtcgaag agtgcgggg 
tcgaatagg tccaggtcg aagagtgcg gggtctaat 
aggtccagg tcgaaaagt gcagaatcg aataggtcg 
cggaggtcc aggtctagg tctagatca cagtcgcag 
gagaagaga ccggagtcg ggaggtcgt agcaggtct 
aatagccct aatttgcaa attgacgag cctgggtca 
cctgagagt ggcaaaggg gataagagg aaaagggac 
agttctgaa gagaggact agcaaaaag aagcatcgg 
attattgac tctgatagt gagggagaa gaaggaaag 
gaaaatgac aaagaggtc agtgctgct gccattttt 
ggagacgac gcggatgac ataagcagc gaggaagaa 
aaagaaaag gccgagtca gagaaagag gcacaagcc 
agtgaagaa gagcagcac cattcagag gaagaacat 
gagcagaga caaccagac gaagacgaa gataaggaa 
aacgaaccg gaacaaatc ccagagacg cgaatcgac 
gtcgaaata cccaaaatc agttgcgac ttgggtcgc 
gacatccac ttcgtcaaa ctccccaat ttcctttca 
gtcgaaacg cgacctttt gatcccgaa acttacgaa 
gatgaaatt gacgaagag gaaactctg gatgaagaa 
ggacgcgct cgcttgaag ttgaaggtc gagaacacg 
atacggtgg cgagaagcc gtcgataaa gagggcaat 
gtcaagaaa gagtcaaat gcaagactt gttcggtgg 
tcggatggt tcctacagt ttacactta ggttctgaa 
atttttgac gtctacaaa caaccactc cagggtgac 
cacaatcac ttgtttatc agacaaggc accggtctc 
caaggccag gctgtgttt aggaccaaa ttgagcttc 
aggccacat tctaccgaa agtttcaca cacaggaaa 
atgaccttg tcgcttgca gacaggtcg cagaagact 
tccgggatt aaaatcttg tcgcaagtc ggagctgat 
cccgaccat gacaggaaa cttctcttg aagaaagag 
gaagaaaag ttgcggcaa actgtacgc gtgagcaaa 
cctcggcgc aagggtgac agtgggacg cggtctcac 
aacagcagt gtgtacaga gaagaggat gggagcgat 
gaagagggg gctatttca ctcaatgcc attaaaaat 
aagtacaag tcgggggct gccacagtg gctaaaggt 
ggggccatc tattcgtca gatgaggaa gggtcagac 
attgaggct aggagagcg aggaaaatt gacaaggcg 
aaggcgtta aaggactca gaatcaagc gaagaaagc 
gagtga
    mRNA sequence
    • >TC013564 RA
      gggattttg gatatattg tttacagtc gacgattgt 
attacagta ttaggttat gtgtttgca attttagac 
tactttaaa cgatgtctt cacggtctg actccgata 
gcgagtcta acagaagtg cgagcccca tcaacaccg 
gccccgcgc ccacgccgg gccatggcc ttgaccgct 
ccgcgtcca attcgcccc agtacacgc aggggtccc 
ccgaacggg ctggaagtc ggacgtccg gcagccccg 
cgtccagcg caaggtcgc gctcgccct ccgccgaat 
caaacaagt ccaccgcgt cccagagaa cagccgcct 
caaacactt cccgaaaat cgaggtcta ggagtgtag 
cctcgaaca ggtctcgcg gctcacaga gcgccgagt 
caaacagat cgggctcga atcgctcag agtcgcccc 
ctggctcac gtaggtcta ggtcgagta gtgcagggt 
cgaaaaagt cgaggtcga ggtctggga gtgcagcga 
gtaataagt cggggagtg cggcgagta gcaagtcga 
ggtctaggt cggggagtg cggcctcga ataggtcca 
ggtcgaaga gtgcgggct cgaataggt ccaggtcga 
agagtgcgg ggtcgaata ggtccaggt cgaagagtg 
cggggtcta ataggtcca ggtcgaaaa gtgcagaat 
cgaataggt cgcggaggt ccaggtcta ggtctagat 
cacagtcgc aggagaaga gaccggagt cgggaggtc 
gtagcaggt ctaatagcc ctaatttgc aaattgacg 
agcctgggt cacctgaga gtggcaaag gggataaga 
ggaaaaggg acagttctg aagagagga ctagcaaaa 
agaagcatc ggattattg actctgata gtgagggag 
aagaaggaa aggaaaatg acaaagagg tcagtgctg 
ctgccattt ttggagacg acgcggatg acataagca 
gcgaggaag aaaaagaaa aggccgagt cagagaaag 
aggcacaag ccagtgaag aagagcagc accattcag 
aggaagaac atgagcaga gacaaccag acgaagacg 
aagataagg aaaacgaac cggaacaaa tcccagaga 
cgcgaatcg acgtcgaaa tacccaaaa tcagttgcg 
acttgggtc gcgacatcc acttcgtca aactcccca 
atttccttt cagtcgaaa cgcgacctt ttgatcccg 
aaacttacg aagatgaaa ttgacgaag aggaaactc 
tggatgaag aaggacgcg ctcgcttga agttgaagg 
tcgagaaca cgatacggt ggcgagaag ccgtcgata 
aagagggca atgtcaaga aagagtcaa atgcaagac 
ttgttcggt ggtcggatg gttcctaca gtttacact 
taggttctg aaatttttg acgtctaca aacaaccac 
tccagggtg accacaatc acttgttta tcagacaag 
gcaccggtc tccaaggcc aggctgtgt ttaggacca 
aattgagct tcaggccac attctaccg aaagtttca 
cacacagga aaatgacct tgtcgcttg cagacaggt 
cgcagaaga cttccggga ttaaaatct tgtcgcaag 
tcggagctg atcccgacc atgacagga aacttctct 
tgaagaaag aggaagaaa agttgcggc aaactgtac 
gcgtgagca aacctcggc gcaagggtg acagtggga 
cgcggtctc acaacagca gtgtgtaca gagaagagg 
atgggagcg atgaagagg gggctattt cactcaatg 
ccattaaaa ataagtaca agtcggggg ctgccacag 
tggctaaag gtggggcca tctattcgt cagatgagg 
aagggtcag acattgagg ctaggagag cgaggaaaa 
ttgacaagg cgaaggcgt taaaggact cagaatcaa 
gcgaagaaa gcgagtgaa tatcaaaaa ctgtatttg 
tgttacata aagattgat tacagtgta agtaatact 
gaacctaa

    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