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Gene information
General information
TC002445 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_007418.3: 29457311..29462168
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
    		TC002445
    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
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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_00376

    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: 90.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 6 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupation not fulfilled (died as prepupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection


    Pupal morphology
    head position irregular - Number of animals showing the phenotype: 3

    antenna position irregular - Number of animals showing the phenotype: 3

    legs position irregular - Number of animals showing the phenotype: 3

    wings shortened - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002445 RA
      MSTPGPSKW HPTTGYYDY NYGVGINFY QPMVDYIDQ 
KERGGRTSY PHLPWTDEL GLSQYDPKT IKSYSNEAL 
DRVARQTEA SAKEKLRDF RATTKSSFM LSKCVSAAS 
ITEKVNVKN RKKKEIVRQ IKTLKSKMA DDLGYDHRK 
EDRDVELVL KGSQKYLRG RSAKGIEAF LQSESYKNI 
AQGVEFDLA NTRNIENRR FVDTQQFTK HLKVMDKRL 
LNQLEEKCV EPLDALSRE LKGFDKRTA EYFFDTSKA 
TSIEIEQLN ARVVEAETR LKTEVQRIK KKLQIQITE 
LEMSLDAAN KTNIDLQKT IKKQSLQLT ELTAHYDEV 
QRQLQVTLD QLSVSQRKV QALTAEAEE IRGNYESAL 
RGKRAAEQA CEEAGTRIN ELTTINVNL ASAKSKIEQ 
ELSTIVADY DEITKELRI SDERYQRVQ TELKHTVEI 
LHEEQERVV KIEAIKKSL EIEVKNLSV RLEEVEANA 
IVGGKRIIS KLEARIRDI EAELDEEKR RHAETIKIL 
RKKERTVKE VMIQCEEDQ KNIALLTES LEKANGKVA 
LFKRQLQEQ EGVSQQSVT RVRRFQREL EAAEDRADT 
AESSLSLIR AKHRTFVTT SSVPGSQVY LVQETRSSE 
QI
    CDS sequence
    • >TC002445 RA
      atgtctact cccggtccc tccaaatgg cacccaacg 
acaggctac tacgactac aattacggt gtcggaatc 
aacttctac caaccaatg gtcgattac atcgaccag 
aaggagcga ggtggcagg acaagctac ccccacctc 
ccatggacc gacgaactc ggcctgagc caatacgat 
cccaagaca attaaaagc tactcaaac gaagcactt 
gaccgagtt gccagacaa accgaagcc agtgccaag 
gaaaaacta cgtgatttc agagctacg accaaaagc 
tccttcatg ttgagcaag tgtgtgtcc gccgccagc 
atcacagag aaagtgaac gtgaaaaac aggaagaaa 
aaggaaatc gtaagacag attaaaacc ctcaagtcg 
aaaatggcc gacgatttg gggtacgac catcgaaag 
gaggaccgg gacgtggag ctcgtgctc aaaggctcg 
caaaagtac ctcagagga cgctcagct aagggcatc 
gaagcgttc cttcaatcc gaaagttac aaaaacatc 
gctcaaggg gttgagttc gatttggca aacacccga 
aatatcgaa aatcgacga tttgtggac acgcaacag 
ttcaccaag cacttgaaa gtcatggat aagaggctc 
ttgaaccaa ctggaggaa aaatgcgtc gagcctttg 
gacgcgcta agtcgggaa cttaaaggt ttcgacaag 
cgaaccgcc gaatacttc ttcgacacc agcaaggcc 
accagcatc gaaatcgag caactcaac gcccgcgtc 
gtcgaagcc gagaccagg ctcaagacc gaagtccaa 
cgcatcaag aagaagctc caaatccaa atcaccgaa 
ttggaaatg tccctggac gccgccaac aagaccaac 
atcgacttg caaaagacc atcaagaaa caatccttg 
caactgacc gagctcaca gctcactac gacgaagtc 
caaaggcaa ttgcaagtc accctcgac cagctcagc 
gtctcgcag aggaaagtc caagcgctc acggcggaa 
gccgaggag atcagaggc aactacgag tcggcattg 
cgtggcaag agggcggcg gaacaagcc tgcgaggaa 
gccggaacc aggatcaac gaactcact accattaac 
gttaacttg gcttcagcc aagagcaag atcgagcaa 
gaactgtcc actattgtt gccgattac gacgagatc 
accaaggag ttgcgcatt tcggacgaa cgctaccaa 
cgtgtccag accgagttg aagcacacc gtcgagatc 
ctccacgag gagcaagag cgcgtggtg aagatcgaa 
gccatcaag aagtccctc gagatcgaa gtcaagaac 
ttgtccgtc cgcctcgaa gaggtcgaa gccaacgcc 
atcgtcggc ggcaagcgc atcatcagc aagctggag 
gcccgcatc agggacatc gaggccgag ctcgacgag 
gagaagcgc cgccacgct gaaaccatc aagatcctg 
cgcaagaag gagcgcacc gtcaaggaa gtgatgatc 
cagtgcgag gaggaccag aagaacatt gccttgttg 
accgagtct ttggagaag gccaacggc aaagtcgct 
ctcttcaag cggcaactc caggaacag gagggcgtt 
tcgcagcag agcgtgacc cgcgtgcgc cgcttccag 
cgggagctg gaggccgcc gaagaccgc gccgacacc 
gccgagagc agtttgtcg cttattagg gccaaacac 
cgcactttc gtgaccacc agctccgtg cccggctcc 
caggtctac ctggtgcag gagacccga agcagcgag 
cagatctaa
    mRNA sequence
    • >TC002445 RA
      attggcttg gcacttgtc tgtttcaaa catggtata 
aaagagccc ttcgatcga cctaaatat cagtgttaa 
ttaattttt atcgacaat gtctactcc cggtccctc 
caaatggca cccaacgac aggctacta cgactacaa 
ttacggtgt cggaatcaa cttctacca accaatggt 
cgattacat cgaccagaa ggagcgagg tggcaggac 
aagctaccc ccacctccc atggaccga cgaactcgg 
cctgagcca atacgatcc caagacaat taaaagcta 
ctcaaacga agcacttga ccgagttgc cagacaaac 
cgaagccag tgccaagga aaaactacg tgatttcag 
agctacgac caaaagctc cttcatgtt gagcaagtg 
tgtgtccgc cgccagcat cacagagaa agtgaacgt 
gaaaaacag gaagaaaaa ggaaatcgt aagacagat 
taaaaccct caagtcgaa aatggccga cgatttggg 
gtacgacca tcgaaagga ggaccggga cgtggagct 
cgtgctcaa aggctcgca aaagtacct cagaggacg 
ctcagctaa gggcatcga agcgttcct tcaatccga 
aagttacaa aaacatcgc tcaaggggt tgagttcga 
tttggcaaa cacccgaaa tatcgaaaa tcgacgatt 
tgtggacac gcaacagtt caccaagca cttgaaagt 
catggataa gaggctctt gaaccaact ggaggaaaa 
atgcgtcga gcctttgga cgcgctaag tcgggaact 
taaaggttt cgacaagcg aaccgccga atacttctt 
cgacaccag caaggccac cagcatcga aatcgagca 
actcaacgc ccgcgtcgt cgaagccga gaccaggct 
caagaccga agtccaacg catcaagaa gaagctcca 
aatccaaat caccgaatt ggaaatgtc cctggacgc 
cgccaacaa gaccaacat cgacttgca aaagaccat 
caagaaaca atccttgca actgaccga gctcacagc 
tcactacga cgaagtcca aaggcaatt gcaagtcac 
cctcgacca gctcagcgt ctcgcagag gaaagtcca 
agcgctcac ggcggaagc cgaggagat cagaggcaa 
ctacgagtc ggcattgcg tggcaagag ggcggcgga 
acaagcctg cgaggaagc cggaaccag gatcaacga 
actcactac cattaacgt taacttggc ttcagccaa 
gagcaagat cgagcaaga actgtccac tattgttgc 
cgattacga cgagatcac caaggagtt gcgcatttc 
ggacgaacg ctaccaacg tgtccagac cgagttgaa 
gcacaccgt cgagatcct ccacgagga gcaagagcg 
cgtggtgaa gatcgaagc catcaagaa gtccctcga 
gatcgaagt caagaactt gtccgtccg cctcgaaga 
ggtcgaagc caacgccat cgtcggcgg caagcgcat 
catcagcaa gctggaggc ccgcatcag ggacatcga 
ggccgagct cgacgagga gaagcgccg ccacgctga 
aaccatcaa gatcctgcg caagaagga gcgcaccgt 
caaggaagt gatgatcca gtgcgagga ggaccagaa 
gaacattgc cttgttgac cgagtcttt ggagaaggc 
caacggcaa agtcgctct cttcaagcg gcaactcca 
ggaacagga gggcgtttc gcagcagag cgtgacccg 
cgtgcgccg cttccagcg ggagctgga ggccgccga 
agaccgcgc cgacaccgc cgagagcag tttgtcgct 
tattagggc caaacaccg cactttcgt gaccaccag 
ctccgtgcc cggctccca ggtctacct ggtgcagga 
gacccgaag cagcgagca gatctaact gcacagcga 
ccgccgatt cgtctgtct gagcacagc taacgatcg 
aagacactc gaaccggtc catgttatt catttgatt 
catttttta ttttatttt tttccgttc gtgcacata 
atgttgatg aaaattatt atacatata actaccact 
ctcttttaa agattgttg ttattaagt cattgatta 
acagaaaga aacatacac atttcacac gcaccattt 
taaacgaac atgagcgat ttttatttg tttcgtgta 
tcgcgacgt gtctctaat acgtaactc gagaaggct 
gtaaggaaa tttgtaggt ttcaggacg ttaggatta 
tcatctgtt aacttctac aaggatgca ggagtaatg 
tactatgta agtttgaat gtactgtgt aagaataaa 
ttgcttata tacag
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY
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