Status
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Gene information
General information
TC005721 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: 8512071..8513788
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
    		TC005721
    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
    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_04002

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

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005721 RA
      MSVSHNCDE NRRNLLSEV ESAISNNDL ATLKQLLPH 
PFDQTTLQD ENGNNPLHL SIIYEKNAI FDYLLDKFD 
LEAQNHSGH TALSLSLLY HSDIFIIEY FALELIRKG 
ANIEVVFSD NNTVLHLAL QRHYFQVAQ LVIEKGADL 
NVQNDAGCT PLHMLFHVK TDPEGVTEG VGLMLYHGA 
DASVRDKNG NVPFELAVI YDRYIKVAQ ENLFFYTFD 
SNSSYEMSD EVLFELLES KSSLFFQIV DYVSEVVFV 
SGVTFSPFL LFRIDPNFL KVVIGKFDY VVRKILACP 
PDHFNWFRF RIESLQNWE ILLASHLSA DTIEFIGRF 
SISWLVKKL DEDQVPPKI ILGFLFYLL SYGLEVSEI 
DVQAVYKKF GYCDLFKTF LHLDIKKSK LMNTDILPK 
LIYDVSLDL GTFLTDPHD FSINAIENL LDYYADPQL 
RQFCNKLGV KKLVVKSTA LPQVPLLVQ LARDTVRKY 
LVEKFSIRH PKQFFSLLK QLPISHIHE KILSFETKL 
Y
    CDS sequence
    • >TC005721 RA
      atgtctgtc tcacataat tgtgatgaa aaccgccga 
aatctctta tctgaagtt gaatcagca atatctaac 
aatgacctt gccaccctc aagcagctt ttaccgcac 
ccttttgac caaaccacc cttcaggac gaaaacggc 
aacaaccct ctgcactta tccataatt tacgaaaag 
aacgcaatt tttgactac ttgcttgat aaattcgac 
ttggaggcg caaaaccac tccggacac acagcccta 
tccctgtcc ctgctctac cacagcgac attttcata 
atcgagtac tttgccctg gaactgatc cgcaagggg 
gccaacatt gaggtagtt tttagcgat aataacaca 
gtactgcac ttggccctc caacgtcac tacttccaa 
gtcgcccag cttgtaatt gaaaagggg gccgattta 
aacgtgcaa aacgacgcg gggtgcacc cccttacac 
atgcttttc cacgtaaag accgacccc gaaggggtg 
actgagggc gtggggctc atgctgtac cacggggcg 
gatgccagc gtccgtgac aagaacggg aacgtcccc 
ttcgagctt gcggtaatt tatgatcgt tatataaaa 
gtagcgcag gaaaatctg ttcttttac acgtttgat 
tccaactcg agctacgaa atgtcggac gaggtgttg 
ttcgagttg ttggagtcc aaatcatcg ttgtttttc 
caaattgtt gattacgtt tccgaagtt gtttttgtc 
tcaggtgtg acgttctcg ccgtttttg ttgtttcgg 
atcgatccg aattttctt aaagttgta atcgggaaa 
tttgactac gttgttcgg aaaatccta gcgtgtcca 
cccgaccat ttcaattgg ttccggttc agaattgag 
tcgcttcaa aattgggaa attctactc gcgagtcat 
ttaagcgcg gacactatt gaattcatt ggcaggttt 
agtatcagt tggttggtt aaaaagcta gatgaggat 
caagtgcct ccgaaaata attttaggt tttttgttt 
tacttgctt tcgtacggt ttggaggtt tccgaaatt 
gacgtacag gctgtgtac aaaaaattt ggttactgt 
gatcttttc aagactttc ttacacttg gatattaag 
aaaagcaaa ttaatgaac accgatata ctcccgaaa 
ttaatttac gacgttagt ttagacttg gggacgttc 
ctcacagac cctcacgac ttttcaatc aatgcgatt 
gaaaatttg ttggattat tacgccgac ccccaatta 
agacaattt tgcaataaa ctgggagtc aaaaaactt 
gtggttaaa tcaaccgct ttgccccaa gtgcccctc 
cttgtgcaa ctagccaga gacacggtg cgcaaatac 
ctggttgaa aaattcagt ataaggcac ccgaaacaa 
tttttcagc ctacttaaa caactacca atcagccac 
atccatgaa aaaatcctg tcgtttgaa accaaactg 
tattga
    mRNA sequence
    • >TC005721 RA
      gctttcttc aaataattg ttacaaatg aaattgatg 
gaaaattga tgaagatga ctcgtaaat cgtttaagt 
gatgtctgt ctcacataa ttgtgatga aaaccgccg 
aaatctctt atctgaagt tgaatcagc aatatctaa 
caatgacct tgccaccct caagcagct tttaccgca 
cccttttga ccaaaccac ccttcagga cgaaaacgg 
caacaaccc tctgcactt atccataat ttacgaaaa 
gaacgcaat ttttgacta cttgcttga taaattcga 
cttggaggc gcaaaacca ctccggaca cacagccct 
atccctgtc cctgctcta ccacagcga cattttcat 
aatcgagta ctttgccct ggaactgat ccgcaaggg 
ggccaacat tgaggtagt ttttagcga taataacac 
agtactgca cttggccct ccaacgtca ctacttcca 
agtcgccca gcttgtaat tgaaaaggg ggccgattt 
aaacgtgca aaacgacgc ggggtgcac ccccttaca 
catgctttt ccacgtaaa gaccgaccc cgaaggggt 
gactgaggg cgtggggct catgctgta ccacggggc 
ggatgccag cgtccgtga caagaacgg gaacgtccc 
cttcgagct tgcggtaat ttatgatcg ttatataaa 
agtagcgca ggaaaatct gttctttta cacgtttga 
ttccaactc gagctacga aatgtcgga cgaggtgtt 
gttcgagtt gttggagtc caaatcatc gttgttttt 
ccaaattgt tgattacgt ttccgaagt tgtttttgt 
ctcaggtgt gacgttctc gccgttttt gttgtttcg 
gatcgatcc gaattttct taaagttgt aatcgggaa 
atttgacta cgttgttcg gaaaatcct agcgtgtcc 
acccgacca tttcaattg gttccggtt cagaattga 
gtcgcttca aaattggga aattctact cgcgagtca 
tttaagcgc ggacactat tgaattcat tggcaggtt 
tagtatcag ttggttggt taaaaagct agatgagga 
tcaagtgcc tccgaaaat aattttagg ttttttgtt 
ttacttgct ttcgtacgg tttggaggt ttccgaaat 
tgacgtaca ggctgtgta caaaaaatt tggttactg 
tgatctttt caagacttt cttacactt ggatattaa 
gaaaagcaa attaatgaa caccgatat actcccgaa 
attaattta cgacgttag tttagactt ggggacgtt 
cctcacaga ccctcacga cttttcaat caatgcgat 
tgaaaattt gttggatta ttacgccga cccccaatt 
aagacaatt ttgcaataa actgggagt caaaaaact 
tgtggttaa atcaaccgc tttgcccca agtgcccct 
ccttgtgca actagccag agacacggt gcgcaaata 
cctggttga aaaattcag tataaggca cccgaaaca 
atttttcag cctacttaa acaactacc aatcagcca 
catccatga aaaaatcct gtcgtttga aaccaaact 
gtattgaat aaaacaagc gagctttta taaactttt 
at

    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