Status
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Gene information
General information
TC005682 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_007423.3: 9733107..9735894
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
    		TC005682
    Gene ontology

    GO terms for Tribolium

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    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 *
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    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00908

    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: 0.0% (includes death as pupa, adult)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): 30% - 50%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment thinner - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment potentially number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment posterior dorsalbent - Penetrance (percentage of animals/eggs on slide): less than 30%
    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
    • >TC005682 RA
      MEPMQGNSP ESVTTCGTD DERCCLTHQ PSCHSSKSL 
LTEEKMRRK LQFFFMNPI EKWQAKKRF PYKFTVQLI 
KIILVTMQL CLFAYNRYN HVNYTWDNR ISFSHLFLR 
GWDATREVS AYPPATGPL AIYKADDFY ATIDYAYSG 
YANLSQAVG SYSYANEDN TMTDMELCL SQYKKGIIF 
GFNESYVFD AEIVDTCLN ITHRQDHLL DSKQYLDNL 
NINFSALVK AVLKFSVKT VNFKTAGRI SPPNCYRFD 
ININFDNED HDGQMLLWL DAQPVRLMC KGDVEYVTD 
DEIDSLLQS LLNYLVITI CILSFVLCT RALLRAQKL 
KKMTNSFFI NQFGRPLSK EDRNKFLNL WYVMIIIND 
ILIIIGSSI KEQIERKDF TSDQWNVCS LFLGLGNML 
VWFGVLRYL TFFKTYNVV ILTLEKAAP QVARFLLCA 
LLIYAGFTF SGWLILGPY HLKFRSLST TSECLFSLI 
NGDDMFATF SIMSSKSTM LWWFSKIYL YSFISLYIY 
IILSLFISV IMDAYDTIK IYYIEGFPK SDLQIFIGD 
TNFEDVSSG IFRTASNDS LGGLMKDLC CCTCTKLQK 
SYSSLSRGS LATEGSRRG SNAV
    CDS sequence
    • >TC005682 RA
      atggagcca atgcaaggc aattcccca gaaagcgtc 
acaacctgt ggcactgac gacgaacgg tgttgtctc 
acccaccag ccctcctgt cacagctcc aagtcgctc 
ctaaccgag gaaaaaatg cgtcgcaag ctccagttc 
ttcttcatg aaccccatc gagaaatgg caagccaag 
aaacgcttc ccttacaaa ttcacagtg cagctaatc 
aagataatc ctcgtgaca atgcagctg tgtctcttc 
gcctacaat cgctacaac cacgttaat tacacgtgg 
gacaatcgg atttcattc tcgcacttg tttctacgc 
ggctgggat gccacacgt gaagtgagc gcctatcca 
cctgccacg ggacctttg gccatctac aaagcggac 
gatttttac gccactatt gactacgct tattcaggc 
tatgccaat ttgagccaa gctgttggt tcgtactct 
tacgccaat gaggacaat actatgact gatatggaa 
ctgtgcctg tcacagtac aagaaaggc attattttt 
gggttcaac gaatcgtat gtttttgac gccgaaatc 
gtagacacc tgtcttaat ataacgcac aggcaggac 
catctcctc gactctaaa caataccta gataacttg 
aacataaac ttctcggct ttggtcaaa gccgtgctg 
aagttctcg gttaaaact gttaatttt aaaacagcc 
ggtcggatc tcgccaccg aattgctac cgctttgat 
attaacatt aacttcgat aatgaggac cacgatggt 
cagatgttg ctgtggttg gacgcacag ccggtccgt 
ctcatgtgc aagggtgac gttgagtac gtcactgat 
gacgaaatt gactcgctt ttgcaaagt cttttgaac 
tatttggtt atcaccatt tgtattttg tcgtttgtt 
ttgtgcaca agggccctt ctcagggcc caaaagttg 
aagaaaatg accaattcg ttttttatc aatcagttc 
ggacgccct cttagcaaa gaggatagg aacaagttt 
ttgaatctg tggtatgtg atgataata atcaacgac 
atcctcata atcatcggg tcgtcgatc aaggaacag 
atcgaacgt aaggacttt accagcgat cagtggaac 
gtctgtagc ttgttcctg gggcttggg aacatgctg 
gtctggttt ggggttttg cgctacttg acgttcttt 
aaaacgtac aatgttgtg attctgact ttggagaag 
gcggcgcct caagtcgcc agattcctc ctttgtgcg 
ttacttatt tacgcgggt tttaccttc tcagggtgg 
ctgatcctc ggtccgtac catttgaag ttcaggtcg 
ttgtccacg acgtcagag tgccttttc tctctgatt 
aacggcgac gatatgttc gccactttc tccataatg 
tcgagcaaa tcgaccatg ctgtggtgg ttcagcaag 
atctatcta tactcgttt ataagcttg tacatttac 
attattcta agtttgttt atttccgtc atcatggac 
gcctacgat acgatcaag atctactac attgaggga 
ttccccaag agtgattta caaattttc atcggcgat 
accaacttt gaggatgta tcgagtggg atttttaga 
accgcgtcc aatgatagt ttgggtggg cttatgaaa 
gatctatgc tgttgcact tgtactaaa ctacaaaag 
tcttattcg agtttgtca cgtggtagt ttagccact 
gagggatca agacgaggt tcgaatgcc gtctaa
    mRNA sequence
    • >TC005682 RA
      aattaaact gtcccaaaa aaactagga aaaaacgaa 
actccctag ttgcgaaac gtcagatgt cagtgtcaa 
caattaggt tattttcct ttgtcagtg tttgtggtt 
tggccccat caccaagtt aaaagtgaa tgtcctgtt 
gagtgccgt ggaaatgga gccaatgca aggcaattc 
cccagaaag cgtcacaac ctgtggcac tgacgacga 
acggtgttg tctcaccca ccagccctc ctgtcacag 
ctccaagtc gctcctaac cgaggaaaa aatgcgtcg 
caagctcca gttcttctt catgaaccc catcgagaa 
atggcaagc caagaaacg cttccctta caaattcac 
agtgcagct aatcaagat aatcctcgt gacaatgca 
gctgtgtct cttcgccta caatcgcta caaccacgt 
taattacac gtgggacaa tcggatttc attctcgca 
cttgtttct acgcggctg ggatgccac acgtgaagt 
gagcgccta tccacctgc cacgggacc tttggccat 
ctacaaagc ggacgattt ttacgccac tattgacta 
cgcttattc aggctatgc caatttgag ccaagctgt 
tggttcgta ctcttacgc caatgagga caatactat 
gactgatat ggaactgtg cctgtcaca gtacaagaa 
aggcattat ttttgggtt caacgaatc gtatgtttt 
tgacgccga aatcgtaga cacctgtct taatataac 
gcacaggca ggaccatct cctcgactc taaacaata 
cctagataa cttgaacat aaacttctc ggctttggt 
caaagccgt gctgaagtt ctcggttaa aactgttaa 
ttttaaaac agccggtcg gatctcgcc accgaattg 
ctaccgctt tgatattaa cattaactt cgataatga 
ggaccacga tggtcagat gttgctgtg gttggacgc 
acagccggt ccgtctcat gtgcaaggg tgacgttga 
gtacgtcac tgatgacga aattgactc gcttttgca 
aagtctttt gaactattt ggttatcac catttgtat 
tttgtcgtt tgttttgtg cacaagggc ccttctcag 
ggcccaaaa gttgaagaa aatgaccaa ttcgttttt 
tatcaatca gttcggacg ccctcttag caaagagga 
taggaacaa gtttttgaa tctgtggta tgtgatgat 
aataatcaa cgacatcct cataatcat cgggtcgtc 
gatcaagga acagatcga acgtaagga ctttaccag 
cgatcagtg gaacgtctg tagcttgtt cctggggct 
tgggaacat gctggtctg gtttggggt tttgcgcta 
cttgacgtt ctttaaaac gtacaatgt tgtgattct 
gactttgga gaaggcggc gcctcaagt cgccagatt 
cctcctttg tgcgttact tatttacgc gggttttac 
cttctcagg gtggctgat cctcggtcc gtaccattt 
gaagttcag gtcgttgtc cacgacgtc agagtgcct 
tttctctct gattaacgg cgacgatat gttcgccac 
tttctccat aatgtcgag caaatcgac catgctgtg 
gtggttcag caagatcta tctatactc gtttataag 
cttgtacat ttacattat tctaagttt gtttatttc 
cgtcatcat ggacgccta cgatacgat caagatcta 
ctacattga gggattccc caagagtga tttacaaat 
tttcatcgg cgataccaa ctttgagga tgtatcgag 
tgggatttt tagaaccgc gtccaatga tagtttggg 
tgggcttat gaaagatct atgctgttg cacttgtac 
taaactaca aaagtctta ttcgagttt gtcacgtgg 
tagtttagc cactgaggg atcaagacg aggttcgaa 
tgccgtcta agaatagaa aaaatacag ttttgtaaa 
tattttatt gtatataga atagaatat acgttttgt 
acagaaaca tttatataa atatactga ctagatcaa 
aatatgttc gagataagc tttaaatgt atctctgtc 
tcaataaaa tttatttat gtataatct gagtttcac 
tgcaaacct aaatcccca aagaatctt gtttccgat 
tcaagctaa tcggctgcg acaatgttg gtcaataag 
taaactaat taatactat caactgacg tcacagttt 
cttcattca aaaaatata gaaaggaac aatcgcaac 
gtgcttttt agtgttgca tataaatgc tgtatcaat 
aagtaatta attaccctg gcttattca tttaatatt 
atcagcctc cattacacg aaaatattt atttaaata 
agtaactgt tcgtttcag cactaataa cactgtcca 
acacttaaa atttaaatc gttgttaaa aattaacgc 
gattggacc aatcacatt tgctcaatt tggtcatgt 
gatcagtta atcgtgaat taaattaat gatggttct 
ataaactgg ttgtaactt gaaacgatt ttcagaaaa 
tcgcttttc tttgcttcc tgttaaagt aattaatgg 
taaaaattg tatgtttat ttatatcca aaagacaaa 
aataacctc ataattaca tgtagtaaa tagtacaaa 
agttaacac gaacaaaat aattttaaa taagaacat 
aaaatcata gaaaataaa aataaagat catggctta 
ac

    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