Status
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Gene information
General information
TC008448 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_007419.2: 10472643..10526472
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
    		TC008448
    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
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    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 *
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_08172

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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 with embryonic tissue potentially present, no cuticle, no 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): 50% - 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): 50% - 80%
    larva potentially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva dorsal bent - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment anterior number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen dorsal not closed - 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
    • >TC008448 RA
      MSWRGALVF LILSLTQCS GCPVFCSCK WKSGKQTVE 
CINKDLLVI PEGMDSSTQ VLQFCGNNL QTLQRDKFL 
KMDLINLQR IYLCRCRIT SIDDRTFRG LTNLVELDL 
SGNLLETVP SETFLDCPS LMRLSLNAN PIKTLRRAA 
FNHLSFLNT IELSNCEIS NVEQGAFQG LYSLEWLHL 
NGNKMTTLQ GATYLPKSL KGVQLQENP WECDCHILE 
LHAWLRAFT MPHSVEPLC NGPTRLRSR TIKSVPVGE 
LACLPEVSP TMFYLEIGE GKNVTLLCQ VNAIPEARI 
SWTFQGQLL QNDSMIAPG VHLLYFIEE GAVEKRSEL 
FIYNSNSDD NGTFICNAE NAAGLVQAN FTIRVIVKH 
DTPPVTNEL PFEFILITL SAAAVSILL LLVVILLSI 
IKCHRNARL KKKRNNSKA ALSNTTKDN LLQESVDDY 
SEKPPTQEE ETMLYNTPP EDLPVSSIP PTLTPYQLE 
QNPDLINGT ESVGRFTPL KKRDLYVYA PDVHLNPVG 
LLNSGSNCY KTLPYNRNK RSNAANPAG RFSREAEFL 
QRTMHPSYE HYSDVRYTA DGYPVRTNE GAVEPCCST 
TTTVSWPSC VPASFVAKD CVKSVGAQT EDTNTKCEP 
IKETFTESL DEGYEGEGA EVHTNGEAR YLPSCGSLN 
KLILPSPTC VLPYEYKFN R
    CDS sequence
    • >TC008448 RA
      atgtcttgg agaggtgca cttgtgttt ctcatattg 
tctctgact cagtgtagt ggttgtccg gttttctgt 
tcgtgcaag tggaagagc ggtaagcag acagtcgag 
tgcatcaat aaggacctc cttgtcatc cccgaaggt 
atggattcc agtactcaa gtgctgcag ttttgcggg 
aacaatttg caaacactg cagcgcgac aagttcctc 
aaaatggac ttaattaac ttacaacgg atatatttg 
tgccgttgc cgcattaca agcatcgac gatcggacg 
ttccgcggg ttaacaaac ctcgtcgaa ttggatttg 
tccggcaac ttgctcgag acggttccc agtgaaacg 
ttcctcgac tgcccttcg ctaatgagg ctctcactt 
aatgctaat cctataaag accctccga cgggcggca 
ttcaaccat ctgtctttc ctaaacacc atcgagctc 
agcaattgc gagatatca aacgtggag cagggggcc 
ttccagggg ctgtacagt ctcgagtgg ctgcacctc 
aacggaaac aagatgacg acgctgcaa ggagcgacc 
tatctgccg aaatctttg aaaggggtg caactccag 
gaaaatcca tgggagtgc gactgccac atacttgaa 
cttcacgct tggctgagg gctttcacc atgccacat 
tccgtcgag ccgctctgt aatggacca actcgactc 
cggagtcgc acaattaaa tcggtgccg gtgggagaa 
ctcgcttgt ttacctgaa gtttcaccc acgatgttc 
tatctcgaa atcggggaa ggcaaaaat gtcacgctt 
ttatgccaa gttaacgca atccccgaa gcgagaatt 
tcctggacg ttccaagga caattgcta cagaacgac 
tccatgatt gcaccaggt gttcatctc ttgtatttc 
atcgaggag ggagccgtc gaaaaacgc agcgaactc 
ttcatttac aattctaac agtgacgac aacggaacc 
ttcatatgc aacgccgaa aatgcagcc ggacttgtc 
caagcaaat ttcacgatt cgagtaatc gtcaaacac 
gacactcca ccagtcaca aacgaactc cccttcgag 
ttcatccta atcacgctc tcagcagcg gctgtctca 
atcctcctc ttgttagtc gtaatactc ctatctata 
ataaaatgc caccgaaac gcccgattg aaaaagaaa 
cgaaacaac tcgaaagcc gctctcagt aacacaacc 
aaggacaat cttctccaa gaaagcgtc gacgactac 
tcggagaaa cccccaact caggaggaa gaaaccatg 
ctttacaac acccctcct gaagacctc cccgtgtct 
tcaatcccc ccgacactc acgccgtac cagctagag 
caaaacccc gacctcatc aacggcact gaaagtgtg 
gggcggttc acccccttg aaaaaacgc gacctgtac 
gtctacgcc cccgacgtt cacctcaac cccgtgggg 
ttgctcaac tcgggctcg aactgctac aaaacgctc 
ccctacaac aggaacaag cgctccaat gctgccaat 
ccagctggg aggttctcc cgcgaagct gagttcctc 
caacggacg atgcatccg tcgtatgag cactacagt 
gacgtgagg tacactgca gacgggtat ccggtgagg 
accaacgag ggggctgtg gagccctgc tgctccaca 
acgactacg gttagttgg ccgtcgtgt gtccccgcg 
agttttgtt gcgaaagac tgtgtgaag agtgtgggt 
gctcagact gaggacaca aacaccaaa tgtgagccg 
attaaagag acgttcacg gagagtctg gatgaggga 
tacgaaggg gaaggggcg gaggtacat actaatggg 
gaggcgcgc tatttgccc tcctgtggt tcactaaac 
aaattaata ttaccatct cccacatgt gtgcttccc 
tacgagtac aaatttaac agataa
    mRNA sequence
    • >TC008448 RA
      aagcgctgc gcttaatac catatcgcg tcgaatctg 
tgcaaaaat ccaccaatt ttaaactag caacatcac 
caatttgga atttttgtg attcgggtc gcaaaccgc 
caaaatgtc tcgctggtc gatgattgc gctggtttg 
ttgaccgtc gatgagatg cagaatgtc ttggagagg 
tgcacttgt gtttctcat attgtctct gactcagtg 
tagtggttg tccggtttt ctgttcgtg caagtggaa 
gagcggtaa gcagacagt cgagtgcat caataagga 
cctccttgt catccccga aggtatgga ttccagtac 
tcaagtgct gcagttttg cgggaacaa tttgcaaac 
actgcagcg cgacaagtt cctcaaaat ggacttaat 
taacttaca acggatata tttgtgccg ttgccgcat 
tacaagcat cgacgatcg gacgttccg cgggttaac 
aaacctcgt cgaattgga tttgtccgg caacttgct 
cgagacggt tcccagtga aacgttcct cgactgccc 
ttcgctaat gaggctctc acttaatgc taatcctat 
aaagaccct ccgacgggc ggcattcaa ccatctgtc 
tttcctaaa caccatcga gctcagcaa ttgcgagat 
atcaaacgt ggagcaggg ggccttcca ggggctgta 
cagtctcga gtggctgca cctcaacgg aaacaagat 
gacgacgct gcaaggagc gacctatct gccgaaatc 
tttgaaagg ggtgcaact ccaggaaaa tccatggga 
gtgcgactg ccacatact tgaacttca cgcttggct 
gagggcttt caccatgcc acattccgt cgagccgct 
ctgtaatgg accaactcg actccggag tcgcacaat 
taaatcggt gccggtggg agaactcgc ttgtttacc 
tgaagtttc acccacgat gttctatct cgaaatcgg 
ggaaggcaa aaatgtcac gcttttatg ccaagttaa 
cgcaatccc cgaagcgag aatttcctg gacgttcca 
aggacaatt gctacagaa cgactccat gattgcacc 
aggtgttca tctcttgta tttcatcga ggagggagc 
cgtcgaaaa acgcagcga actcttcat ttacaattc 
taacagtga cgacaacgg aaccttcat atgcaacgc 
cgaaaatgc agccggact tgtccaagc aaatttcac 
gattcgagt aatcgtcaa acacgacac tccaccagt 
cacaaacga actcccctt cgagttcat cctaatcac 
gctctcagc agcggctgt ctcaatcct cctcttgtt 
agtcgtaat actcctatc tataataaa atgccaccg 
aaacgcccg attgaaaaa gaaacgaaa caactcgaa 
agccgctct cagtaacac aaccaagga caatcttct 
ccaagaaag cgtcgacga ctactcgga gaaaccccc 
aactcagga ggaagaaac catgcttta caacacccc 
tcctgaaga cctccccgt gtcttcaat ccccccgac 
actcacgcc gtaccagct agagcaaaa ccccgacct 
catcaacgg cactgaaag tgtggggcg gttcacccc 
cttgaaaaa acgcgacct gtacgtcta cgcccccga 
cgttcacct caaccccgt ggggttgct caactcggg 
ctcgaactg ctacaaaac gctccccta caacaggaa 
caagcgctc caatgctgc caatccagc tgggaggtt 
ctcccgcga agctgagtt cctccaacg gacgatgca 
tccgtcgta tgagcacta cagtgacgt gaggtacac 
tgcagacgg gtatccggt gaggaccaa cgagggggc 
tgtggagcc ctgctgctc cacaacgac tacggttag 
ttggccgtc gtgtgtccc cgcgagttt tgttgcgaa 
agactgtgt gaagagtgt gggtgctca gactgagga 
cacaaacac caaatgtga gccgattaa agagacgtt 
cacggagag tctggatga gggatacga aggggaagg 
ggcggaggt acatactaa tggggaggc gcgctattt 
gccctcctg tggttcact aaacaaatt aatattacc 
atctcccac atgtgtgct tccctacga gtacaaatt 
taacagata aacagtcta tatcgtcac ggagtaggc 
tgatactat gaattatgc gccaacaag ctgatttat 
cagagtcga gctcaaaag ttttgcccc aagattcac 
aaagttatg gaataagaa aataaatac aggtgatgc 
gatacaatc gagaagttt tctaattac ataagtcgg 
cggacaaca aattgaata aaactcgaa tgataaatt 
atttattgc catttcgat gagctccaa atcgaatga 
gccttccca ttcaagggc cttttcaat cacgagata 
aggtatttg cctatttaa agtttcaaa actgtccgg 
acgaatgaa aaggtattc acaagctcc ctcctgatg 
gtttaattt ttcaccgct ctaattttc tgctcattt 
actcaaaca tgcgatgaa atttattgt ttagtaagt 
tttattgac ttgaatgga gattttaat attcaaact 
tttgtcgca taaagtgtt tcaacgatg cgagaagtg 
gaagataaa gacttgaag atattggaa cgcgatttt 
tatggagtc atagaggtt cagtaatgc tcgtttaaa 
ctagggaca tgctacttg aaatggatt tagtttaaa 
tcatgacaa gaaagataa atggaaagc ttttaattt 
aatatgaag ggtcattgc tgaaatagc caataaaaa 
ttttacagg acgcataaa aacgcggct ttatttcta 
ttcctaaaa taaaaaccg ccacttccg tggcaagaa 
ttttaacta attggtgat cattttatt caattttgt 
tgttgtaga cgaacttta ataaagtaa aaagctgtt 
gcaaactat tctgcacta aattccgcc gagatattg 
ccatgttaa caattttgg cgtctgata ttcgtctct 
caagacagt gactaaagt cagatgggt actaaacta 
acgctcatt gacaataat gtccgttac aattacgct 
gacttgctc catctagca ttaactcta atccattgt 
aattcatgc ccgacactg ttaattacc aacgtacat 
tagatcagt acttgtcta ttaagaatc aacgaattc 
aattaaacc ggattttta tcacaattt ctgcgccaa 
caggttgtg tacgagtat ttaattaaa atcgggcaa 
cggtcattt taaaagaat gatgagtgt cgagcttaa 
cgcggcaac gtttggccg aacaaaatg aatataagg 
tacatgctg aaagaaatt taattaaca aaagctttg 
aatataaag gatttatgg ttattaaat cagtgtttg 
aaaaatcat gtctgtagc agctgaatc aacaaatgg 
aattgagtc ggtagaacg acctggatg atttctatg 
attaacttt tgttgcgac tactgtttg gaaatggtt 
ttaaagaga taacaaatc acatttaat gcaaatatg 
tttgattgt ggtgtggct ttgcaatta atgtgacac 
caacaatta aataagcca tgtccacag agatcacta 
aacgcggaa ttagaccag attaattaa ctaattaaa 
cgaggaaaa acgcaactc acccaaaat aataaatcg 
ttaaagcat gaattacct ggaacaact tttttattt 
ttagttaat ttgttacat tttttctaa attcaggaa 
acttagttg aaagcagat gatcacaga catcacagt 
ttagtgacc catgttagt tcagagaca aaatgtcgt 
gtcagttgc tctattcgt tacaattta gctaaagat 
agttacgag aggaataag aaaagaaca ccaagcaca 
aaagactga aatgctgat tgagtgttg atactatga 
tagaaaaat taaattttc acgataagc taagagcat 
tgacaacaa taatatttt tactgaact aatagggac 
ttatttttt cttaaaagc attaaaaaa atcttagat 
ct
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY