Status
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Gene information
General information
TC004781 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_007416.3: 6975909..6985239
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
    		TC004781
    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
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    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_00765

    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: 20.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 3
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 remarks: bad quality of preparation,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     labrum not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head cuticle partially protruding - Penetrance (percentage of animals/eggs on slide): less than 30%
    procephalic head shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 20.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004781 RA
      MADDDAVES KKSEEKPSE SATTEPKKK ITVTVKTPK 
EKENFEVDE DLAVKAFKE VIAPVFNAD VDQLCLIFA 
GKIMKDNDT LQQHNIKDG LTIHLVIRA VPRSTESGP 
SRPPADVSA TPFNLGPLG GLAGLDSLG VGSGNFMEI 
QSRMQTELL NNPDMLRQL LDNPFVQRI MNDPENMRA 
LITRNPQMQ ELMERNPEI NHMLNNPEL LRQTMELAR 
NPSMLQELM RSHDRAISN LESIPGGYN ALQRMYRDI 
QEPMFSATS EQFSRNPFA GLVDNNQSG NNPQQGTEN 
REPLPNPWG GQRPNTNNS STNRPQRPV MNSPSMASL 
LQQMSENSD LMQNMLSAP YTQNVLEAL ASDPNMATA 
LLSDNPLLS GNPQLQEQV RTMIPSFVQ QLQNPDIQN 
VMSNPQALN AIMQIHQGM ETLRQTAPN LVNTFGAGG 
TTATTTPST TTTTTTTTT TQANTTTTQ SSTNSDPFS 
EFMARMVAG MASQRDTTL PPEQRYQTQ LEQLASMGF 
VNREANLQA LIATFGDVN AAVERLLAL GQLSMS
    CDS sequence
    • >TC004781 RA
      atggccgac gatgatgcg gttgagtca aagaaaagt 
gaggaaaaa cccagtgaa agcgccaca acggagcca 
aaaaagaaa ataacggtg acggtgaag acgcccaaa 
gaaaaggaa aacttcgaa gtggacgaa gaccttgct 
gtgaaggct tttaaggag gtcatagct ccggtgttt 
aatgcggat gttgaccaa ttatgccta atcttcgcc 
gggaaaatc atgaaagac aatgacacc ttgcagcag 
cacaatatt aaagacggc ctcaccata catctggtc 
atcagggct gtgccccgc agcaccgag tcggggccc 
tcgcgcccg ccagcggac gtaagcgca accccgttt 
aatttgggt cctttgggt ggtttggcg ggtttggat 
tcgttgggt gtgggttct ggcaatttc atggaaatt 
caaagtcgg atgcagact gagctttta aataatcct 
gacatgcta agacaactc ttagacaat ccatttgtc 
caacgaata atgaacgat ccagaaaac atgcgagcc 
ctaataacc cgcaacccc caaatgcag gaactaatg 
gagcgcaac cccgaaatc aaccacatg ttaaacaac 
cccgaattg ctgcgtcag acgatggaa ctcgcccgt 
aacccgtca atgttgcag gagttgatg cggagccac 
gacagggct atcagcaac ctggagagc atccccggg 
ggctacaac gccctccag cgcatgtac agagacatc 
caggagccg atgttttca gcaactagc gaacagttc 
agtcgtaat cctttcgcc ggtcttgtt gataataac 
caaagtggg aataacccc cagcaaggg acggaaaac 
cgggagccc ctccccaat ccctggggc ggtcagagg 
cccaacacg aataatagc tcaacgaat aggccccaa 
agaccggtc atgaacagc ccttcgatg gcaagtttg 
ctgcaacaa atgtccgaa aattcagac ttgatgcaa 
aatatgctg tcagcacct tatacgcaa aatgtactc 
gaggcctta gctagcgac ccaaatatg gcaacggcg 
ctcctttct gataacccc ctgctttcg ggaaaccca 
caactgcag gaacaagtc aggacgatg attccctcg 
tttgtgcaa caactgcaa aatcccgac atacagaac 
gtaatgtcg aacccacag gctctcaat gcgattatg 
caaatccac caagggatg gaaacgctt cggcagacg 
gccccaaac ctcgtaaat actttcggc gccggtggc 
acgactgca accacaacg ccatctaca acaacaaca 
acaactact acgactacg actcaggca aacacaaca 
acgactcaa tctagcacg aattcagac ccgttttca 
gagtttatg gcccgaatg gttgcgggg atggcatct 
cagcgtgat acaacttta cctccagag cagcggtac 
caaacacag ttggaacag ttggcctcg atgggcttt 
gtaaataga gaagcgaat ctgcaagct ttaattgcc 
acttttggc gatgtcaat gctgcagtg gagaggcta 
ctagcgctc gggcagtta tccatgagc taa
    mRNA sequence
    • >TC004781 RA
      agctgttcc aatcttttt gtttgagac aaccagaaa 
tacaccggt gtcacaaag ttgcgttat ttgaatgca 
agtggaaaa cacccagtg ggggaatgt tgacatttg 
ggtacacaa tagtggcag cattgtcga gtaaattta 
tttggtgat ttggttttc agtgtggtg aacctttag 
tcaggcaaa catggccga cgatgatgc ggttgagtc 
aaagaaaag tgaggaaaa acccagtga aagcgccac 
aacggagcc aaaaaagaa aataacggt gacggtgaa 
gacgcccaa agaaaagga aaacttcga agtggacga 
agaccttgc tgtgaaggc ttttaagga ggtcatagc 
tccggtgtt taatgcgga tgttgacca attatgcct 
aatcttcgc cgggaaaat catgaaaga caatgacac 
cttgcagca gcacaatat taaagacgg cctcaccat 
acatctggt catcagggc tgtgccccg cagcaccga 
gtcggggcc ctcgcgccc gccagcgga cgtaagcgc 
aaccccgtt taatttggg tcctttggg tggtttggc 
gggtttgga ttcgttggg tgtgggttc tggcaattt 
catggaaat tcaaagtcg gatgcagac tgagctttt 
aaataatcc tgacatgct aagacaact cttagacaa 
tccatttgt ccaacgaat aatgaacga tccagaaaa 
catgcgagc cctaataac ccgcaaccc ccaaatgca 
ggaactaat ggagcgcaa ccccgaaat caaccacat 
gttaaacaa ccccgaatt gctgcgtca gacgatgga 
actcgcccg taacccgtc aatgttgca ggagttgat 
gcggagcca cgacagggc tatcagcaa cctggagag 
catccccgg gggctacaa cgccctcca gcgcatgta 
cagagacat ccaggagcc gatgttttc agcaactag 
cgaacagtt cagtcgtaa tcctttcgc cggtcttgt 
tgataataa ccaaagtgg gaataaccc ccagcaagg 
gacggaaaa ccgggagcc cctccccaa tccctgggg 
cggtcagag gcccaacac gaataatag ctcaacgaa 
taggcccca aagaccggt catgaacag cccttcgat 
ggcaagttt gctgcaaca aatgtccga aaattcaga 
cttgatgca aaatatgct gtcagcacc ttatacgca 
aaatgtact cgaggcctt agctagcga cccaaatat 
ggcaacggc gctcctttc tgataaccc cctgctttc 
gggaaaccc acaactgca ggaacaagt caggacgat 
gattccctc gtttgtgca acaactgca aaatcccga 
catacagaa cgtaatgtc gaacccaca ggctctcaa 
tgcgattat gcaaatcca ccaagggat ggaaacgct 
tcggcagac ggccccaaa cctcgtaaa tactttcgg 
cgccggtgg cacgactgc aaccacaac gccatctac 
aacaacaac aacaactac tacgactac gactcaggc 
aaacacaac aacgactca atctagcac gaattcaga 
cccgttttc agagtttat ggcccgaat ggttgcggg 
gatggcatc tcagcgtga tacaacttt acctccaga 
gcagcggta ccaaacaca gttggaaca gttggcctc 
gatgggctt tgtaaatag agaagcgaa tctgcaagc 
tttaattgc cacttttgg cgatgtcaa tgctgcagt 
ggagaggct actagcgct cgggcagtt atccatgag 
ctaacctat tcatatatt ccaactgta ttattatta 
cttttaaat tttgggctt tttaaaata ttttgttta 
ggatagact actttatct atgtattag acattcgat 
tttttctta ctgggttgt atttggtgc cacttgttt 
tcattgttt ttgccatta ttgtgaaca gctcgcttc 
aaattgtac agggcgagt ttcctgagt atttttttc 
tccacctcc gagtataat aatcacagg aaccagcgt 
tcgttttaa atacttttt attttctac gaaaaaagt 
atttaatag caaacgtgg tttctgtgt gttcgtttt 
tgaggtgca gtgaggtac ctttagcag actaaccct 
gtatatgtg tttgaaggg actgtagga cacggaatt 
aatccaatg ttgatttga cttggaaaa tgtatatct 
ataattaat tagagacta ttttagcaa cacgtaaag 
tattttatt atcgacttt aataattaa cctttcata 
gaaatattg caatcatgg caaacacta gtcagatgg 
atggtttgt cagcaaaaa cgactgatc tgtggcttg 
tgtaaaaca atcaaatga tattatcag ttgatgtat 
tatatgtta tatgggtgt ctaattttg agaaatctt 
atattttta atatattgt ttttgttga ggaaattcg 
ttgttaata tttttggtt tgagaggag tgattacca 
actgtgcaa attttaaat tttatactg ctaatacaa 
tggcaataa cactagagt tatgtgtta agtggctca 
aacaatatt ctctgtaat ttattatag ctgtcagtg 
tttctgagg cgacactgg ttcatggag actacgacc 
acagatcgc tttttcttc aaactaaac gaactcata 
gctaataga catacaatt ttttgtgca ttgtacatt 
ccatactgt aagacaact cgcataata aatcagttt 
ctccatg

    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