Status
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Gene information
General information
TC014693 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_007420.3: 13490823..13492987
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
    		TC014693
    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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    Publish name
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02323

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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
    • >TC014693 RA
      MFNIFEKLR RFDAYPKTL EDVRIKTYG GAVVTIISL 
TIMTLLFWV ELVDYLTPN VSEELFVDT SRSPSIQIN 
LDIIVPTIS CDFLALDAM DSSGEQHLQ IDHNIYKRR 
LDLQGQPIE EPKKEDITI KRKNSTEVA TVNKTECGS 
CYGASFDPK RCCNTCEDV REAYRERRW AFPENPENI 
TQCKEERFS EKLKTAFAQ GCQIYGSLT VNRVSGSFH 
IAPGKSFSI NHVHVHDVQ PFSSTEFNT THKIRHLSF 
GASIDSDTH NPLKDTVGL AEEGASMFQ YHIKIVPTA 
YVKLDGQFI SANQFSVTK HRRVISLMS GESGMPGIF 
FQYELSPLM VKYTEQSRS FGHFATNVC AIIGGVYTV 
AGLIDTMLY HSVKLIQKK IELGKFH
    CDS sequence
    • >TC014693 RA
      atgttcaac atttttgag aaactgagg cgttttgat 
gcatatccc aaaaccctc gaagatgtg agaattaaa 
acgtacggt ggagcagtc gtcacaata ataagccta 
acaataatg actttactc ttctgggtc gagttggtg 
gattatttg acaccaaac gtgtctgag gaacttttc 
gttgacacg tcacgaagt ccatcaatt caaataaat 
ttggacatt attgtaccc acaatttcg tgtgacttt 
ttagcttta gacgcaatg gattcctca ggtgaacaa 
cacttacaa attgaccac aacatatac aagagacgc 
ttagatctg caagggcag ccaatcgag gagccaaaa 
aaagaagat ataactata aaacgaaaa aattcaacg 
gaagttgcc acggtgaac aaaaccgag tgtggaagt 
tgttacggg gcttccttt gaccctaag agatgttgt 
aacacttgt gaagacgtt agggaagct tacagggag 
agaaggtgg gcgttccct gaaaacccc gaaaacata 
actcagtgt aaagaggaa cggtttagt gagaaactg 
aaaactgcg tttgcacaa gggtgccaa atatacggc 
tccctcaca gttaacaga gtcagtggt agtttccac 
atagccccc ggcaaaagt ttcagcata aatcatgtg 
cacgtacat gacgtccaa cccttttcg tcaaccgaa 
ttcaacaca acacataaa ataagacac ctgtctttt 
ggggccagc atcgacagc gacacccac aaccccctc 
aaagacacg gtagggctt gcagaagaa ggtgcttca 
atgtttcag taccatata aagatcgta cccactgcc 
tatgtgaaa ctggacggt cagtttatt agtgctaat 
caattttcg gttacgaaa caccggcga gtgatttcg 
ttaatgagt ggtgagtct ggaatgccg gggattttt 
ttccagtat gagttgtct ccacttatg gtcaagtac 
acggaacag agccgctcg ttcggtcat tttgcgacc 
aatgtgtgt gcgattatt ggtggggtg tatacagtg 
gccgggctg attgatacg atgttgtat cattcagtg 
aaacttata cagaagaaa atcgagttg gggaagttt 
cattag
    mRNA sequence
    • >TC014693 RA
      ttcaaaaat tttgacacc tgtcaggct gataatgtg 
tacgtcacc ggtaaaaag taaacagtg ctaaatttt 
aaaaagggg gaagatgtt caacatttt tgagaaact 
gaggcgttt tgatgcata tcccaaaac cctcgaaga 
tgtgagaat taaaacgta cggtggagc agtcgtcac 
aataataag cctaacaat aatgacttt actcttctg 
ggtcgagtt ggtggatta tttgacacc aaacgtgtc 
tgaggaact tttcgttga cacgtcacg aagtccatc 
aattcaaat aaatttgga cattattgt acccacaat 
ttcgtgtga ctttttagc tttagacgc aatggattc 
ctcaggtga acaacactt acaaattga ccacaacat 
atacaagag acgcttaga tctgcaagg gcagccaat 
cgaggagcc aaaaaaaga agatataac tataaaacg 
aaaaaattc aacggaagt tgccacggt gaacaaaac 
cgagtgtgg aagttgtta cggggcttc ctttgaccc 
taagagatg ttgtaacac ttgtgaaga cgttaggga 
agcttacag ggagagaag gtgggcgtt ccctgaaaa 
ccccgaaaa cataactca gtgtaaaga ggaacggtt 
tagtgagaa actgaaaac tgcgtttgc acaagggtg 
ccaaatata cggctccct cacagttaa cagagtcag 
tggtagttt ccacatagc ccccggcaa aagtttcag 
cataaatca tgtgcacgt acatgacgt ccaaccctt 
ttcgtcaac cgaattcaa cacaacaca taaaataag 
acacctgtc ttttggggc cagcatcga cagcgacac 
ccacaaccc cctcaaaga cacggtagg gcttgcaga 
agaaggtgc ttcaatgtt tcagtacca tataaagat 
cgtacccac tgcctatgt gaaactgga cggtcagtt 
tattagtgc taatcaatt ttcggttac gaaacaccg 
gcgagtgat ttcgttaat gagtggtga gtctggaat 
gccggggat ttttttcca gtatgagtt gtctccact 
tatggtcaa gtacacgga acagagccg ctcgttcgg 
tcattttgc gaccaatgt gtgtgcgat tattggtgg 
ggtgtatac agtggccgg gctgattga tacgatgtt 
gtatcattc agtgaaact tatacagaa gaaaatcga 
gttggggaa gtttcatta gaaatatta ttttaggac 
ttgtataat gtataaagt ataaatagt gttaaggat 
ttgatatga ctggacact tttcgaaat

    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