Status
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Gene information
General information
TC014494 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: 11192893..11195211
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
    		TC014494
    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
    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
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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_02292

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 10.0% (includes death as larva, prepupa, pupa, adult)

    Adult morphology
    odoriferous glands size decreased - Number of animals showing the phenotype: 4 (41 dpi)
    Days post injection


    odoriferous glands partially colour not present - Number of animals showing the phenotype: 4 (41 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: 3 - Number of animals showing the phenotype: 1
    mature egg deposition blocked number 1st lateral oviduct: 2 - Number of animals showing the phenotype: 1
    tropharium size decreased - Number of animals showing the phenotype: 4

    vitellogenic egg chamber late sometimesnumber increased - Number of animals showing the phenotype: 2

    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014494 RA
      MSESFAVGI GPAAPRGRS AASVATTVG SDHVFEVPT 
KLIKTPADM KIWEKSEAY FEFLGFILA INEAVKGKS 
NSRGSENAS EEVQKVIEL LNKLDTKID ETPAVQQPQ 
RFGNVAFRT WYQKLRDES LVLLQDVLP TELNAAVPE 
IVSYLVESF GNSTRIDYG TGHEISFIM FLCCLYKIG 
FLKQHDKTA TGCAIFTRY LDLARKLQK TYRMEPAGS 
HGVWSLDDY QFVPFIWGS SQLFAHPII EPSGFLVPQ 
ILNQYGEDF MFLTCIQYI NSVKSGPFA EHSNQLWSI 
SGVSSWTKI NGGLIKMYK AEVLSKFPV VQHIVFGSL 
FTLRPMEQS SGMMTAKTS MVPPPVPFP ARSSSTLGS 
MERESNESV KSTSIEQKK SVSTVSSKR ESVQSSVKG 
SQVTDRSSV VSAPSEEMS KVSAEEKSE GSGSQGDNG 
AAN
    CDS sequence
    • >TC014494 RA
      atgtccgag tctttcgcg gtgggtatc gggcctgcg 
gccccgcgg ggccgctcg gcggcctcc gttgccacc 
acagtgggg tccgaccac gtcttcgaa gtccccaca 
aaactgatc aaaacaccg gctgatatg aaaatctgg 
gagaaatcc gaggcctat tttgaattt ttggggttc 
attctggcc ataaacgag gcagttaaa ggcaaaagc 
aattcgcgc gggagcgaa aacgcctcc gaggaagtc 
cagaaagtg atcgagttg ttgaacaag cttgacacg 
aaaatcgac gaaacgccc gctgtacaa cagccccaa 
aggttcgga aacgtggcg ttcaggacc tggtaccag 
aaactgcga gatgagtcg cttgtcttg ctccaggat 
gtgctcccg actgaatta aatgccgcc gtccccgag 
atcgtttca tatttggtg gaatcgttc gggaattcc 
acacggatt gactacggg acggggcac gaaatttca 
ttcattatg ttcctgtgc tgtttgtat aaaatcggg 
tttttgaaa caacatgat aagacagcc actggctgt 
gccattttt acgcggtat ttggacttg gcgcggaaa 
ttacaaaag acctaccgg atggagccc gccggaagt 
cacggcgtt tggagtctg gacgactac cagtttgtg 
ccgtttatt tggggcagc tcgcagctg tttgcccat 
ccgatcatt gaaccgtcg ggttttttg gtgccgcaa 
attttaaac cagtatgga gaggacttc atgttcctc 
acttgcatc cagtacata aactcagta aaaagcggc 
ccttttgcc gagcactcg aaccagctt tggagcata 
agcggagtg tcctcctgg acgaaaatc aacgggggc 
ctaattaaa atgtacaaa gcggaagtt ttgagcaag 
tttccggtt gtgcaacac atcgttttt gggtcgttg 
tttacgctc agacccatg gaacagtca tctgggatg 
atgacggcc aagaccagc atggtaccg cccccagta 
ccgttccct gctaggtcg tcctcaacg ctgggttcc 
atggaacga gagtcgaat gagtccgtc aaaagcact 
tcaattgag cagaaaaag agcgtctcg accgtttcg 
agtaaaagg gagtcggtg caaagttca gttaaaggg 
tcacaagtg actgatcgg agctcggtt gtgtcggca 
cccagcgag gaaatgtcg aaggtttca gcggaggaa 
aaatctgaa gggagtggg tctcaaggg gacaacgga 
gcggcaaat taa
    mRNA sequence
    • >TC014494 RA
      cagccgtta aaagggctt caatttatt caaaaaaaa 
gtttataca atgtaatca aaatacgaa actaggtta 
actagaagt cttcagatg gctttataa acttccgct 
tatttctgt ttttcttcc cgctgaatt tatttgcca 
ttgtgttaa ctagagtgg agtattcct gagccattt 
gggcgtcac taacgtcgg tttctttgc gtttttcca 
cctcttgtt tcttcctag tgtaatcgt tagacatca 
gtttctcta tttccggat tcatgccac caaatgata 
agcgccctt cgattaaat ttcggcagt taaagatac 
tcgtttctg tgaatacaa tggtcccgc ttttcttca 
tttcgtcgg tgatttcat tggaataca tggctttgc 
cctcggcat cttcctgct ccttgagca ccctttcct 
tcgtacgtt tcataaact tcatgtcca ggatggact 
tggacaatt gaactggtt taggccctt gcatacttt 
tggctcagt gaaaaacaa tgtataaaa cacttttca 
aaaaaatat aatttgtta ggttagaag aactgtcag 
ttgtcactt tgacgtgcc atttttatc attgaaagg 
ttatgattt gtgtttatt aaacaaata aaatgaata 
gaacaatta tgtccgagt ctttcgcgg tgggtatcg 
ggcctgcgg ccccgcggg gccgctcgg cggcctccg 
ttgccacca cagtggggt ccgaccacg tcttcgaag 
tccccacaa aactgatca aaacaccgg ctgatatga 
aaatctggg agaaatccg aggcctatt ttgaatttt 
tggggttca ttctggcca taaacgagg cagttaaag 
gcaaaagca attcgcgcg ggagcgaaa acgcctccg 
aggaagtcc agaaagtga tcgagttgt tgaacaagc 
ttgacacga aaatcgacg aaacgcccg ctgtacaac 
agccccaaa ggttcggaa acgtggcgt tcaggacct 
ggtaccaga aactgcgag atgagtcgc ttgtcttgc 
tccaggatg tgctcccga ctgaattaa atgccgccg 
tccccgaga tcgtttcat atttggtgg aatcgttcg 
ggaattcca cacggattg actacggga cggggcacg 
aaatttcat tcattatgt tcctgtgct gtttgtata 
aaatcgggt ttttgaaac aacatgata agacagcca 
ctggctgtg ccattttta cgcggtatt tggacttgg 
cgcggaaat tacaaaaga cctaccgga tggagcccg 
ccggaagtc acggcgttt ggagtctgg acgactacc 
agtttgtgc cgtttattt ggggcagct cgcagctgt 
ttgcccatc cgatcattg aaccgtcgg gttttttgg 
tgccgcaaa ttttaaacc agtatggag aggacttca 
tgttcctca cttgcatcc agtacataa actcagtaa 
aaagcggcc cttttgccg agcactcga accagcttt 
ggagcataa gcggagtgt cctcctgga cgaaaatca 
acgggggcc taattaaaa tgtacaaag cggaagttt 
tgagcaagt ttccggttg tgcaacaca tcgtttttg 
ggtcgttgt ttacgctca gacccatgg aacagtcat 
ctgggatga tgacggcca agaccagca tggtaccgc 
ccccagtac cgttccctg ctaggtcgt cctcaacgc 
tgggttcca tggaacgag agtcgaatg agtccgtca 
aaagcactt caattgagc agaaaaaga gcgtctcga 
ccgtttcga gtaaaaggg agtcggtgc aaagttcag 
ttaaagggt cacaagtga ctgatcgga gctcggttg 
tgtcggcac ccagcgagg aaatgtcga aggtttcag 
cggaggaaa aatctgaag ggagtgggt ctcaagggg 
acaacggag cggcaaatt aatttaatt gttacatta 
atgtctgaa taaaaaata cctattcat

    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