Status
Please wait ...
Gene information
General information
TC009917 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_007422.5: 11921698..11928694
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
    		TC009917
    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_04721

    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
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 2
    ovary without detectable defects - Number of animals showing the phenotype: 2
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature fluorescence decreased - 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: < 20
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009917 RA
      MRKTLLSLL SASAMIFVI KGEIYENTV FPSLPVAVL 
ETNNSLCKR QSETYIQNL ENFTMWAHE MWDATAKSA 
AGVLRGSIF QMGHFEECL TAKAPFLTK YCLALMTAN 
VPSPKVHTD PISLYHDPY EHVSERLYP YKDKSQQPR 
NIIQVGWCI PASCTPEDS EKFLNSYIN DIDLPLLQN 
NVTYNAHIS EITCHTKLE NSQFFAADY CFCILTILL 
GLLVIVSTL CDFNASEEK DEKPAKKSS LYSYLMAFS 
ARKNFNELT KIDESNSAL RLLYGIRTL CIFCIILDH 
RFGTFTSAA LLNFDYVET QYRAPLAPF LFHGDLFVD 
TFFVLGGLL VCYGLLNQF DKRKVNPAF IILMRYIRL 
TPVYAFVIF YYATLFNYT GSGPLWKLV AGQDSQDCK 
DHWWINLLY LSNYIKADH VCMAHSWYL PCDFHYFII 
AIFVCLLIK KDKKFGLGT LLLLVIVST LIPFAITLV 
YQRPALLHF YPDFLTGPK SHYDFLLTY IKSHTRATP 
YFIGMFAGY VYYKLQGKS THVCRVRSH FLMLLSLLL 
ILTCIIGGA VFYDPYHKY NALESSVYA ALHRPAFAI 
GTVGIIYVS SYGHATFIN RFLCWSPWI PLSKLVYGA 
YLIHMQFQL RAASKFMNP TQFSYFDVI CLSMGDTVL 
SFLTATGLY LLVEAPFRK IFRQLLMPN RVSPPETKQ 
ESRENVSNG VTDSRL
    CDS sequence
    • >TC009917 RA
      atgcggaaa acacttctt tcgcttcta agtgcttcg 
gctatgatc ttcgtaata aaaggtgaa atttacgaa 
aataccgtt tttccctcg ttaccggtg gctgtgtta 
gaaacgaac aactcatta tgtaaaaga caaagtgaa 
acgtatatc caaaattta gaaaacttt acgatgtgg 
gcacacgaa atgtgggat gcgactgcc aaatcggcg 
gcgggagtg ctgcgaggg agcattttc caaatgggg 
cattttgag gagtgtcta acggccaaa gcgcccttt 
ttgaccaaa tattgcctg gccctaatg acggcaaat 
gtgcccagt ccgaaggtg cacacggac cccatctcg 
ctctaccat gacccgtac gaacacgtt tcagagagg 
ctttatccc tacaaagac aaatcccag caaccccgc 
aacataatc caggtggga tggtgcatc cctgcgtcc 
tgcacccct gaagattcc gaaaagttc ctcaattcg 
tacataaat gacatcgat ttacctctt ttgcaaaac 
aacgtaaca tacaacgca cacatttcc gaaataact 
tgtcacacc aagctggaa aattcgcaa tttttcgct 
gctgactac tgcttctgc atactaact atcctcctt 
ggcctgtta gttatcgtc tcaactctt tgtgacttt 
aacgcaagt gaggaaaaa gacgagaag ccggccaaa 
aaatcatct ttgtacagc tatttgatg gcgttttcc 
gcaaggaaa aacttcaac gaattgaca aaaatcgac 
gaatctaac agcgccctg cgcctcttg tacgggatt 
cgcacactt tgcattttc tgcattatt ttggaccac 
cgtttcggc actttcaca tcggccgct ttactgaat 
ttcgactac gtggagacg caatacagg gcgccccta 
gccccgttt ttattccac ggcgattta ttcgtagac 
acgtttttc gttctgggt gggcttttg gtgtgctac 
ggactgctt aaccagttc gacaagaga aaagtcaat 
cccgcattc ataattttg atgagatac ataagattg 
actcccgtg tatgccttc gtaattttc tactatgcc 
acgcttttt aattacacg ggttcgggg cctttgtgg 
aaattggtc gccggtcaa gactcgcaa gactgcaaa 
gaccactgg tggatcaat ctgctctat ctcagcaac 
tacattaaa gccgatcac gtgtgtatg gcccattca 
tggtatctc ccgtgcgac tttcattac ttcattata 
gccattttt gtgtgtctt ttgatcaaa aaagacaag 
aagtttggg ctcggcacc ttgctactg ctggtgatc 
gtctcaacg ctgatcccg tttgccatc acgctggtc 
tatcagcgg ccggctttg ctgcacttc tatcccgat 
tttttgacg ggacccaag agccactac gacttcctg 
ctgacctac atcaagtcg cacacgagg gccacgccg 
tacttcatc ggcatgttc gccggatac gtctactat 
aagttgcaa ggaaaaagc acccacgtt tgcagggtc 
aggtcgcac ttcctgatg ctgctgtcg ctgctgctc 
atcttgact tgcatcatc gggggcgcc gttttctac 
gacccttac cacaaatac aacgctctt gagtctagc 
gtttacgct gctttacac cgcccagcg ttcgctatc 
ggaaccgtc ggaataatc tacgtctcc agctacggt 
cacgctacc ttcattaat agatttctt tgttggtcc 
ccttggatt cccctaagt aaattggtt tatggtgct 
tacctcatc cacatgcaa tttcagtta agagctgca 
tccaagttt atgaacccg actcagttt tcctacttc 
gatgtcata tgtctgtca atgggtgat acggttttg 
tcatttctg accgcaact gggttgtat ctattagtt 
gaagcacct ttcaggaag attttcaga caactgttg 
atgccaaat agggtcagt ccaccagaa acgaaacaa 
gagtcgaga gaaaatgtc agcaatggt gtcactgat 
agtaggctg tag
    mRNA sequence
    • >TC009917 RA
      tcttattta tttacacat ttccatgct taaagccat 
acacataga atgcaactt tttttatga atcaataac 
gtgacacga tgcggaaaa cacttcttt cgcttctaa 
gtgcttcgg ctatgatct tcgtaataa aaggtgaaa 
tttacgaaa ataccgttt ttccctcgt taccggtgg 
ctgtgttag aaacgaaca actcattat gtaaaagac 
aaagtgaaa cgtatatcc aaaatttag aaaacttta 
cgatgtggg cacacgaaa tgtgggatg cgactgcca 
aatcggcgg cgggagtgc tgcgaggga gcattttcc 
aaatggggc attttgagg agtgtctaa cggccaaag 
cgccctttt tgaccaaat attgcctgg ccctaatga 
cggcaaatg tgcccagtc cgaaggtgc acacggacc 
ccatctcgc tctaccatg acccgtacg aacacgttt 
cagagaggc tttatccct acaaagaca aatcccagc 
aaccccgca acataatcc aggtgggat ggtgcatcc 
ctgcgtcct gcacccctg aagattccg aaaagttcc 
tcaattcgt acataaatg acatcgatt tacctcttt 
tgcaaaaca acgtaacat acaacgcac acatttccg 
aaataactt gtcacacca agctggaaa attcgcaat 
ttttcgctg ctgactact gcttctgca tactaacta 
tcctccttg gcctgttag ttatcgtct caactcttt 
gtgacttta acgcaagtg aggaaaaag acgagaagc 
cggccaaaa aatcatctt tgtacagct atttgatgg 
cgttttccg caaggaaaa acttcaacg aattgacaa 
aaatcgacg aatctaaca gcgccctgc gcctcttgt 
acgggattc gcacacttt gcattttct gcattattt 
tggaccacc gtttcggca ctttcacat cggccgctt 
tactgaatt tcgactacg tggagacgc aatacaggg 
cgcccctag ccccgtttt tattccacg gcgatttat 
tcgtagaca cgtttttcg ttctgggtg ggcttttgg 
tgtgctacg gactgctta accagttcg acaagagaa 
aagtcaatc ccgcattca taattttga tgagataca 
taagattga ctcccgtgt atgccttcg taattttct 
actatgcca cgcttttta attacacgg gttcggggc 
ctttgtgga aattggtcg ccggtcaag actcgcaag 
actgcaaag accactggt ggatcaatc tgctctatc 
tcagcaact acattaaag ccgatcacg tgtgtatgg 
cccattcat ggtatctcc cgtgcgact ttcattact 
tcattatag ccatttttg tgtgtcttt tgatcaaaa 
aagacaaga agtttgggc tcggcacct tgctactgc 
tggtgatcg tctcaacgc tgatcccgt ttgccatca 
cgctggtct atcagcggc cggctttgc tgcacttct 
atcccgatt ttttgacgg gacccaaga gccactacg 
acttcctgc tgacctaca tcaagtcgc acacgaggg 
ccacgccgt acttcatcg gcatgttcg ccggatacg 
tctactata agttgcaag gaaaaagca cccacgttt 
gcagggtca ggtcgcact tcctgatgc tgctgtcgc 
tgctgctca tcttgactt gcatcatcg ggggcgccg 
ttttctacg acccttacc acaaataca acgctcttg 
agtctagcg tttacgctg ctttacacc gcccagcgt 
tcgctatcg gaaccgtcg gaataatct acgtctcca 
gctacggtc acgctacct tcattaata gatttcttt 
gttggtccc cttggattc ccctaagta aattggttt 
atggtgctt acctcatcc acatgcaat ttcagttaa 
gagctgcat ccaagttta tgaacccga ctcagtttt 
cctacttcg atgtcatat gtctgtcaa tgggtgata 
cggttttgt catttctga ccgcaactg ggttgtatc 
tattagttg aagcacctt tcaggaaga ttttcagac 
aactgttga tgccaaata gggtcagtc caccagaaa 
cgaaacaag agtcgagag aaaatgtca gcaatggtg 
tcactgata gtaggctgt agtaactca ccttttctc 
ctcgaatta atttatcaa aacaagtag tatttaatg 
gtagattta tgtgtactt taattttgt acgagaaat 
gttactaaa taacaaaat aaagttttt taacttcc

    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