Status
Please wait ...
Gene information
General information
TC013711 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: 5474656..5477008
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
    		TC013711
    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_08240

    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: 30.0% (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

    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 not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: % (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
    • >TC013711 RA
      MSFETLQIE KICRTCLSE EGDMRSVFS IDESIGETM 
RLFEMLMSC AAVQVLEND GLPNQVCLQ CVHYITRAF 
SFKQLCERS DATLRQLLG KPMQATFME LKPLLSSDQ 
HEPSFNDVI NTVTENIQA VTDSVNEAF SSAVATVNS 
IDVGDSFKS EGSQDMKMK LEFVDNDVL GIDPDSCGS 
DAESKINEL RAKRESKKK KIRDDTEQP IYPCEECTQ 
CFTTMIDLK AHAKTHPKI SRHICKICN QGFASASTL 
CRHMKVHDG AKRHLCSEC GKGFARSDD LTRHIRTHT 
GEKPFPCKL CGKSFAQSF RLLEHMRAH ANEKSFICS 
VCGKAFSRY TSLAAHNKT HSGIKSHAC GVCGKRLCG 
SGSLAMHMK THTGVKDHI CPYCGKGFT TPSNLTIHK 
RTHTGERPY VCNECGKGF PDPSRLTVH VRSHSGEKP 
YVCSVCGRG CVSSSQLKK HRRIHTGEK PYQCNLCPK 
AFPRSEDLR IHIKTHTGD RNHICPFCK KGFYQASTL 
KVHLRIHTG EKPYTCNIC NKAFSQTGP LSTHMKTHS
    CDS sequence
    • >TC013711 RA
      atgtctttc gaaacactc caaatcgaa aagatatgt 
agaacctgc ctttcggaa gaaggtgac atgcgttcg 
gtatttagc attgacgaa tctatcggc gaaacaatg 
cgtttgttt gaaatgtta atgtcttgt gctgcagtg 
caggttttg gaaaacgac ggattgccc aaccaagtt 
tgtttacaa tgtgttcat tacataact cgtgctttt 
tcatttaaa caattatgc gagagatca gatgcaacg 
ttgcggcaa ctcctaggc aaacccatg caggccact 
tttatggaa ttaaaacca ttattgtct agtgatcaa 
cacgaacct tcatttaac gatgttata aataccgtc 
acggaaaat atacaggcc gtaacagat tccgtaaat 
gaggctttt agtagcgca gttgcaaca gtgaatagc 
atagacgtt ggggattct ttcaagtcg gaagggtcc 
caagacatg aaaatgaaa ctggagttt gtggacaat 
gacgtgtta ggaattgat ccagattcg tgtggtagc 
gatgccgaa agcaaaata aacgaactg agagctaaa 
agagaatca aagaaaaag aaaattaga gacgacact 
gaacaaccg atttatcca tgtgaggaa tgcactcag 
tgtttcact acaatgatc gatttgaag gcccatgct 
aaaacacat ccgaaaatt agcagacac atttgtaaa 
atctgtaat caaggtttc gcaagtgcg agcactttg 
tgtcgacac atgaaagta catgatggc gcaaaacgg 
catttgtgt agtgagtgt ggcaaaggt tttgcgaga 
tcggatgat cttacaaga catataaga acacacact 
ggtgaaaag ccttttcct tgtaaatta tgcggcaaa 
tcgtttgct caatctttt cgtctgttg gagcatatg 
agggcgcat gcgaacgaa aaaagtttc atttgttca 
gtttgtggc aaagccttt tcacgttat acgagtttg 
gcggcgcat aataagaca catagtggc ataaaaagc 
cacgcttgt ggggtttgt ggcaaaagg ttgtgtggt 
tctggttct cttgcaatg catatgaag actcacacg 
ggcgttaaa gaccacatt tgtccttac tgtggcaaa 
ggttttacc acaccgagt aatctgacc atacataaa 
aggacgcac acaggtgag cgtccttac gtttgcaac 
gaatgtggt aaaggtttt cctgatccg tcgagactc 
acagtccat gtgcgatca cacagcggc gaaaagcct 
tacgtttgt agcgtttgt ggccgtggt tgtgtcagt 
tcgtctcaa ttaaaaaaa cacagaaga atacatact 
ggcgaaaag ccataccag tgcaatcta tgtccaaag 
gcatttcca cgaagcgaa gatttacgc attcatata 
aaaactcac actggggat agaaaccat atttgtcct 
ttttgcaaa aaaggcttt tatcaggct tcaacttta 
aaagtacac cttagaata cacaccggg gaaaaaccg 
tacacttgc aatatttgt aataaagct ttttcgcaa 
accgggccc ctatccacg cacatgaaa acgcattca 
tag
    mRNA sequence
    • >TC013711 RA
      ccaatcatc gaaataacc taaattaat aaacaaacg 
attttttaa aaatgtctt tcgaaacac tccaaatcg 
aaaagatat gtagaacct gcctttcgg aagaaggtg 
acatgcgtt cggtattta gcattgacg aatctatcg 
gcgaaacaa tgcgtttgt ttgaaatgt taatgtctt 
gtgctgcag tgcaggttt tggaaaacg acggattgc 
ccaaccaag tttgtttac aatgtgttc attacataa 
ctcgtgctt tttcattta aacaattat gcgagagat 
cagatgcaa cgttgcggc aactcctag gcaaaccca 
tgcaggcca cttttatgg aattaaaac cattattgt 
ctagtgatc aacacgaac cttcattta acgatgtta 
taaataccg tcacggaaa atatacagg ccgtaacag 
attccgtaa atgaggctt ttagtagcg cagttgcaa 
cagtgaata gcatagacg ttggggatt ctttcaagt 
cggaagggt cccaagaca tgaaaatga aactggagt 
ttgtggaca atgacgtgt taggaattg atccagatt 
cgtgtggta gcgatgccg aaagcaaaa taaacgaac 
tgagagcta aaagagaat caaagaaaa agaaaatta 
gagacgaca ctgaacaac cgatttatc catgtgagg 
aatgcactc agtgtttca ctacaatga tcgatttga 
aggcccatg ctaaaacac atccgaaaa ttagcagac 
acatttgta aaatctgta atcaaggtt tcgcaagtg 
cgagcactt tgtgtcgac acatgaaag tacatgatg 
gcgcaaaac ggcatttgt gtagtgagt gtggcaaag 
gttttgcga gatcggatg atcttacaa gacatataa 
gaacacaca ctggtgaaa agccttttc cttgtaaat 
tatgcggca aatcgtttg ctcaatctt ttcgtctgt 
tggagcata tgagggcgc atgcgaacg aaaaaagtt 
tcatttgtt cagtttgtg gcaaagcct tttcacgtt 
atacgagtt tggcggcgc ataataaga cacatagtg 
gcataaaaa gccacgctt gtggggttt gtggcaaaa 
ggttgtgtg gttctggtt ctcttgcaa tgcatatga 
agactcaca cgggcgtta aagaccaca tttgtcctt 
actgtggca aaggtttta ccacaccga gtaatctga 
ccatacata aaaggacgc acacaggtg agcgtcctt 
acgtttgca acgaatgtg gtaaaggtt ttcctgatc 
cgtcgagac tcacagtcc atgtgcgat cacacagcg 
gcgaaaagc cttacgttt gtagcgttt gtggccgtg 
gttgtgtca gttcgtctc aattaaaaa aacacagaa 
gaatacata ctggcgaaa agccatacc agtgcaatc 
tatgtccaa aggcatttc cacgaagcg aagatttac 
gcattcata taaaaactc acactgggg atagaaacc 
atatttgtc ctttttgca aaaaaggct tttatcagg 
cttcaactt taaaagtac accttagaa tacacaccg 
gggaaaaac cgtacactt gcaatattt gtaataaag 
ctttttcgc aaaccgggc ccctatcca cgcacatga 
aaacgcatt catagcgta cctaaactt tatttattt 
atttactaa actttacat ttcagtgag attatattg 
tataaagta gcgtctatt tagtagtta tacacatag 
gaacacgta tttaataac ttgggacta tgttggtga 
aatattatt atgtactgc ctaaataaa tgcaatttt 
aataa

    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