Status
Please wait ...
Gene information
General information
TC003689 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_007418.3: 12757775..12765166
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
    		TC003689
    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_00602

    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: 3 (3 dpi)
    Days post injection

    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 4

    Comment: prooocyten absent
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003689 RA
      MSVESQYYP DGDNEKRKR MSTGLQVNC PHSLRLAIQ 
SAYEYGYHF LVTQITHPN YARDLLHGK PPPAIGRTD 
RILQSLEWG RYIVAELTP TINVDSEIE HVQRKSKAL 
FLQELGFAV HLGVPVIKF SLTKRHNAQ LGRLINEKL 
VNGFTSSFW VTLPMVHPS QFSPICTED EKEDSWEWW 
NDFRTYCNY DKHVGLVLE LPEIAHIPS QSEVNRWIG 
EPVKALIIP TTYFILNNH GKPVLPRAH QDIIQRFLT 
IDVQYIIKS DSETDLSLY TKYLHFLGK KLYVGDPNL 
EFIQGCEDF LQNPLQPLT EHLETNIYE VFEKDQIKY 
TTYQNAIQK ALADVPQDV ALPVIMVVG AGRGPLVQA 
ALNVSYILH RKVKVYAVE KNPYAINTL IDRVNHDWN 
GQVTLINED MRVYEPPEK ADILVSELL GSFGDNELS 
PECLDGAQR FLKKSGISI PCSYTSYLA PLQSIKIFN 
EIRNNRPAD KTLRTCYET PYVIHLVNY YQIAPAQPL 
FKFEHPNWN DVINNERYK KLRFNCEQS CILTGFVGF 
FDTVLYKDV MLSIHPETH TREMVSWFP IVFPLMEPL 
KVEAGSVIE ISFWRVENA DKVWYEWCL EKPLKGCVM 
NPAGRSYFI KKH
    CDS sequence
    • >TC003689 RA
      atgagcgtg gaatctcaa tactaccca gacggagac 
aatgaaaaa cgcaagcga atgtcaacc ggtctccaa 
gtgaactgc ccccacagt cttaggcta gcaatccag 
tcagcttat gaatacggt taccatttt ctagtaact 
caaataacg caccccaac tacgctcgc gacctcctc 
cacgggaag cccccgccg gcaatcggt cgtacagac 
cgcatcttg caaagtctt gaatggggg cgctatatc 
gtcgctgaa ctcactccc accatcaac gtggacagc 
gaaattgaa cacgtgcaa aggaaaagc aaagccctg 
ttcttgcaa gagttaggt tttgcggtt catttgggg 
gttcccgtg ataaaattt tccctaact aagcgacac 
aacgcacag ttggggcgc ctcatcaat gagaaactc 
gtgaacggg tttacgtcc agtttttgg gttacgctc 
cccatggtg cacccgtca caatttagc cccatttgc 
accgaagat gagaaggag gattcttgg gagtggtgg 
aacgatttt cgcacttat tgtaattac gataagcac 
gtaggtcta gttttggag ttgcctgaa attgcacat 
attccttca caaagtgag gtcaatagg tggattggg 
gagcccgtc aaagcgcta attatcccc acgacttac 
tttatttta aataatcac ggaaagcct gtcttacca 
cgcgcccac caggacata attcagcgc tttctaacc 
atagacgtc caatacatc atcaaatcg gactctgag 
accgacctg tctctctac actaaatat ctacacttc 
ttggggaaa aagctatac gttggtgac cccaatctt 
gaatttatc caaggctgt gaagacttc ctgcaaaac 
cccctccag cccctcacc gagcacctt gaaaccaac 
atttacgaa gttttcgaa aaagaccaa atcaagtac 
actacatat cagaacgcc atccagaaa gccctcgca 
gacgtaccg caagacgtc gccctccct gtcatcatg 
gtcgtgggg gccggtcga ggccccctc gtccaagcc 
gccctcaac gtctcctac atcctccac cgtaaagtc 
aaagtctac gccgttgag aaaaatccc tacgctatc 
aacactcta attgatcga gtgaaccac gattggaac 
ggtcaagtc actctaatt aacgaagac atgcgagtg 
tatgagccc ccagagaag gccgatatt ttggtttcg 
gaactgttg gggtcgttt ggtgacaac gaactgtcg 
ccggagtgt ctcgatggg gctcaaaga tttctcaaa 
aagagtgga atctccatt ccgtgttcg tatacgtcg 
tatttggcg ccccttcag agtatcaag atttttaac 
gagattagg aacaatcgc ccggcggat aagacgcta 
agaacctgc tatgaaaca ccatatgtg attcatttg 
gttaattat taccaaata gctccagcc cagcctttg 
ttcaaattt gaacacccc aattggaat gatgttata 
aataatgaa aggtacaaa aaactgagg ttcaattgt 
gagcagagt tgcattctg acgggtttc gttggattt 
tttgacacc gttttgtac aaggatgtg atgttgagt 
atacaccca gaaacacac acccgtgag atggtcagt 
tggttccca atcgtgttc cctttaatg gaaccgtta 
aaagtcgag gctggtagc gtaattgaa atttcattt 
tggagagtc gaaaatgcc gacaaagtg tggtacgaa 
tggtgtttg gaaaaaccg ctcaaaggc tgcgtaatg 
aatccagcc ggacggtca tattttatt aaaaagcat 
tag
    mRNA sequence
    • >TC003689 RA
      ggaactgtc aatttttat tttgacagc gttgtttga 
aaaatagtg gtaattcaa acgccccaa aatgagcgt 
ggaatctca atactaccc agacggaga caatgaaaa 
acgcaagcg aatgtcaac cggtctcca agtgaactg 
cccccacag tcttaggct agcaatcca gtcagctta 
tgaatacgg ttaccattt tctagtaac tcaaataac 
gcaccccaa ctacgctcg cgacctcct ccacgggaa 
gcccccgcc ggcaatcgg tcgtacaga ccgcatctt 
gcaaagtct tgaatgggg gcgctatat cgtcgctga 
actcactcc caccatcaa cgtggacag cgaaattga 
acacgtgca aaggaaaag caaagccct gttcttgca 
agagttagg ttttgcggt tcatttggg ggttcccgt 
gataaaatt ttccctaac taagcgaca caacgcaca 
gttggggcg cctcatcaa tgagaaact cgtgaacgg 
gtttacgtc cagtttttg ggttacgct ccccatggt 
gcacccgtc acaatttag ccccatttg caccgaaga 
tgagaagga ggattcttg ggagtggtg gaacgattt 
tcgcactta ttgtaatta cgataagca cgtaggtct 
agttttgga gttgcctga aattgcaca tattccttc 
acaaagtga ggtcaatag gtggattgg ggagcccgt 
caaagcgct aattatccc cacgactta ctttatttt 
aaataatca cggaaagcc tgtcttacc acgcgccca 
ccaggacat aattcagcg ctttctaac catagacgt 
ccaatacat catcaaatc ggactctga gaccgacct 
gtctctcta cactaaata tctacactt cttggggaa 
aaagctata cgttggtga ccccaatct tgaatttat 
ccaaggctg tgaagactt cctgcaaaa ccccctcca 
gcccctcac cgagcacct tgaaaccaa catttacga 
agttttcga aaaagacca aatcaagta cactacata 
tcagaacgc catccagaa agccctcgc agacgtacc 
gcaagacgt cgccctccc tgtcatcat ggtcgtggg 
ggccggtcg aggccccct cgtccaagc cgccctcaa 
cgtctccta catcctcca ccgtaaagt caaagtcta 
cgccgttga gaaaaatcc ctacgctat caacactct 
aattgatcg agtgaacca cgattggaa cggtcaagt 
cactctaat taacgaaga catgcgagt gtatgagcc 
cccagagaa ggccgatat tttggtttc ggaactgtt 
ggggtcgtt tggtgacaa cgaactgtc gccggagtg 
tctcgatgg ggctcaaag atttctcaa aaagagtgg 
aatctccat tccgtgttc gtatacgtc gtatttggc 
gccccttca gagtatcaa gatttttaa cgagattag 
gaacaatcg cccggcgga taagacgct aagaacctg 
ctatgaaac accatatgt gattcattt ggttaatta 
ttaccaaat agctccagc ccagccttt gttcaaatt 
tgaacaccc caattggaa tgatgttat aaataatga 
aaggtacaa aaaactgag gttcaattg tgagcagag 
ttgcattct gacgggttt cgttggatt ttttgacac 
cgttttgta caaggatgt gatgttgag tatacaccc 
agaaacaca cacccgtga gatggtcag ttggttccc 
aatcgtgtt ccctttaat ggaaccgtt aaaagtcga 
ggctggtag cgtaattga aatttcatt ttggagagt 
cgaaaatgc cgacaaagt gtggtacga atggtgttt 
ggaaaaacc gctcaaagg ctgcgtaat gaatccagc 
cggacggtc atattttat taaaaagca ttagtttca 
aattatttt tataataaa ttcataaca aattaaact 
gaaacaatt tgtttcccg tcctacaaa aaatttcct 
gcacatata tataccaat tttcttgtg agaattcat 
tcatgagtt gttctaatt cctgattta aatcacgag 
caagcgatt tgagtttct ctgtttggt caccaagac 
accaagcta tgctgatgt gaaacgaag gattttcat 
agaattttt ctaacttaa attcgccca aacaatgat 
caagacact gcactagtt ttagtaaag tgtcgtagc 
cagttttaa tctgtaaac ccaaaaaag ttcgggttt 
tttcctcat ttatgtaca cttccaggc catccaaca 
ttataataa atctgtaaa aaatta

    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