Status
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Gene information
General information
TC009349 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_007422.5: 653057..669184
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
    		TC009349
    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_01534

    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 remarks: bad quality of preparation,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - 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)

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009349 RA
      MHSASFDSE ISGKDGGEV LVAIAALVT EGRIPGKLS 
SKTKGFYEG PHCPLNKTA REHRCDLSN LLCSTYENV 
RLEVLDLWK KNIPVCLEV LLTCPCKNN VTVKSPETY 
DDDFLLEKW YFSINHRRS AEPLFFNFV QLMNAIRSQ 
LYFSQLTAW LTVQDENSP IKITDKNLR YRLTLPGET 
FESSQFTQS AVKHEFPLT DIGNGFTAT VSFFSLPRM 
SALPEFACL KKIHEGSSL VDDRMHTVC TLKGKHRCE 
DFEEVENVK SQRAIKITR FKKPHPSTS RPKLTVDVH 
KANTYQEKN LLNSHKNDL KVQDKGKLL LDAIERSAL 
KSTNERRCD ENCVQTERN DCDTSERDI SSIKGQSKY 
DIVVETCDS PKARHKTDV ATNIEHAIK GMRKKLTLD 
DEVGKSEAE IPSAFEQAK FRKDLDNAA SMVFHSRTG 
LPLTSSPAP VRRGKSCFD FDSSINSVS AIKSALFPT 
SFSTDEDSE SDGSIVSPC SPETNTVPK RELSPVKYR 
RKGHAANLL GSFEESVLN GRLEPVSTV HGFTAELGA 
SGSFVPKHL VVPVTVFFY TLGDNDKVS SPYLGHINL 
GKKGYNVPK TGTVQVTLF NPLGTVVKM FVIMYDLSD 
MPPNSQTFI RQRTLYMPT NYKEANAEW GPKWLRYLV 
HLRFISSKS GKIYLHSDI RMIIFRKSD LDTATAHGI 
DMSYELRSF THMPVNPRF SPRK
    CDS sequence
    • >TC009349 RA
      atgcatagc gcgagcttt gatagtgag attagcggc 
aaggatgga ggagaggtt ttggtggcg attgctgct 
ttggtgacg gaaggtcga attccgggc aagctgagc 
agcaaaacg aagggcttc tatgaaggg ccgcattgt 
cccttgaat aagacagcg agagagcat aggtgcgac 
ctatccaat ctattatgc tcaacctac gaaaatgtg 
cgtttggag gttttggat ctatggaag aaaaacatt 
cctgtctgt ttggaagtg cttctgact tgtccttgt 
aaaaataac gtgactgta aaatcaccc gaaacatac 
gacgacgat tttctcttg gaaaagtgg tatttcagc 
atcaaccat cgaagaagt gccgaacca ctgtttttc 
aattttgtc caactgatg aacgcaatc cggtcccaa 
ttgtatttt tcccagctc acggcctgg ctaacagtc 
caggacgag aacagtcca attaaaata accgacaag 
aacctccgg taccgtctg acattgccg ggagagacg 
ttcgaatcg tcgcagttc acacaatct gccgtcaaa 
cacgaattc ccgctcaca gatattggg aacgggttc 
acagccact gtttccttc ttcagccta ccacggatg 
tcagctttg cccgaattc gcgtgcttg aagaaaatc 
cacgaaggg agtagtcta gtggacgac cgcatgcac 
accgtgtgc accctcaag ggcaaacac cgctgcgaa 
gacttcgaa gaagttgag aatgtgaag agtcaaagg 
gcgattaaa atcacgagg ttcaagaag ccgcacccg 
tccacctcc aggccgaag ctgacggtg gacgtgcac 
aaggcgaac acctaccag gagaagaac ctcctcaac 
agccataaa aatgatctc aaggtgcag gacaagggc 
aagctcctg ctggacgcg atcgagcgg agcgctttg 
aaaagtaca aacgagcga agatgtgat gaaaactgt 
gttcaaacc gaacggaat gattgtgat acgagcgaa 
cgtgatatt tctagtatt aagggtcaa agcaaatat 
gacatagtt gtagaaact tgtgatagt cccaaagcg 
agacacaaa actgatgtt gccacaaac atcgaacat 
gcaataaaa gggatgagg aaaaagctg acactggac 
gatgaggtt ggaaagagc gaggctgaa ataccgtca 
gcgttcgaa caggcaaag tttcgcaaa gatctggat 
aatgcagcg tcgatggtt ttccattca aggactggc 
ttgccgctg actagcagt ccagcgcct gtccggaga 
ggaaagtcg tgctttgat ttcgactct agtataaat 
tcggtttca gcgatcaaa agcgcttta tttccgacc 
agtttttcg acggatgag gatagtgag agtgatggt 
agtattgtg tcgccttgc agtcccgaa actaacacc 
gttccgaaa cgggaattg tcacccgtt aagtaccga 
aggaaaggg catgcagct aacttgtta ggaagtttc 
gaagagtcg gttttaaac ggccgtctc gagccagtg 
tcaaccgtc catggcttc accgctgaa ttaggggcc 
agtggttct ttcgttcct aaacatcta gttgttcct 
gttactgta tttttttac actttgggt gataacgac 
aaagtttcg tctccatac ctgggccac attaattta 
ggcaaaaag ggctacaac gtcccaaag acaggcacc 
gttcaagtc acgctgttc aacccttta gggactgtt 
gtaaaaatg tttgttatc atgtacgat ctcagcgac 
atgccgccc aactctcag acgttcatc cggcaaagg 
acgctctac atgcccacc aattacaag gaggcgaac 
gcggaatgg gggcctaag tggctgcgc tatctcgtt 
catttgagg tttatcagt tccaagtcc ggaaagatt 
tatctgcac agcgacata cggatgata attttccgt 
aaaagtgac ctggacacg gccacagcg cacggcatt 
gatatgagc tacgagctg cgcagcttc actcacatg 
ccagtcaat cctaggttt tcccccagg aagtaa
    mRNA sequence
    • >TC009349 RA
      tgactagtt tcaggcgaa cctgcgagc tgtcaacgt 
accacaaca aagtaggct ttgcaagtg cattgtctg 
agaaactta gcgaaaaaa cgcaaaatg tgtacaaaa 
agactaaaa aagttttac tacagtgtg gttatttag 
catacgtgt aatttgtga agagattgg agtgcaaca 
caaagatgc atagcgcga gctttgata gtgagatta 
gcggcaagg atggaggag aggttttgg tggcgattg 
ctgctttgg tgacggaag gtcgaattc cgggcaagc 
tgagcagca aaacgaagg gcttctatg aagggccgc 
attgtccct tgaataaga cagcgagag agcataggt 
gcgacctat ccaatctat tatgctcaa cctacgaaa 
atgtgcgtt tggaggttt tggatctat ggaagaaaa 
acattcctg tctgtttgg aagtgcttc tgacttgtc 
cttgtaaaa ataacgtga ctgtaaaat cacccgaaa 
catacgacg acgattttc tcttggaaa agtggtatt 
tcagcatca accatcgaa gaagtgccg aaccactgt 
ttttcaatt ttgtccaac tgatgaacg caatccggt 
cccaattgt atttttccc agctcacgg cctggctaa 
cagtccagg acgagaaca gtccaatta aaataaccg 
acaagaacc tccggtacc gtctgacat tgccgggag 
agacgttcg aatcgtcgc agttcacac aatctgccg 
tcaaacacg aattcccgc tcacagata ttgggaacg 
ggttcacag ccactgttt ccttcttca gcctaccac 
ggatgtcag ctttgcccg aattcgcgt gcttgaaga 
aaatccacg aagggagta gtctagtgg acgaccgca 
tgcacaccg tgtgcaccc tcaagggca aacaccgct 
gcgaagact tcgaagaag ttgagaatg tgaagagtc 
aaagggcga ttaaaatca cgaggttca agaagccgc 
acccgtcca cctccaggc cgaagctga cggtggacg 
tgcacaagg cgaacacct accaggaga agaacctcc 
tcaacagcc ataaaaatg atctcaagg tgcaggaca 
agggcaagc tcctgctgg acgcgatcg agcggagcg 
ctttgaaaa gtacaaacg agcgaagat gtgatgaaa 
actgtgttc aaaccgaac ggaatgatt gtgatacga 
gcgaacgtg atatttcta gtattaagg gtcaaagca 
aatatgaca tagttgtag aaacttgtg atagtccca 
aagcgagac acaaaactg atgttgcca caaacatcg 
aacatgcaa taaaaggga tgaggaaaa agctgacac 
tggacgatg aggttggaa agagcgagg ctgaaatac 
cgtcagcgt tcgaacagg caaagtttc gcaaagatc 
tggataatg cagcgtcga tggttttcc attcaagga 
ctggcttgc cgctgacta gcagtccag cgcctgtcc 
ggagaggaa agtcgtgct ttgatttcg actctagta 
taaattcgg tttcagcga tcaaaagcg ctttatttc 
cgaccagtt tttcgacgg atgaggata gtgagagtg 
atggtagta ttgtgtcgc cttgcagtc ccgaaacta 
acaccgttc cgaaacggg aattgtcac ccgttaagt 
accgaagga aagggcatg cagctaact tgttaggaa 
gtttcgaag agtcggttt taaacggcc gtctcgagc 
cagtgtcaa ccgtccatg gcttcaccg ctgaattag 
gggccagtg gttctttcg ttcctaaac atctagttg 
ttcctgtta ctgtatttt tttacactt tgggtgata 
acgacaaag tttcgtctc catacctgg gccacatta 
atttaggca aaaagggct acaacgtcc caaagacag 
gcaccgttc aagtcacgc tgttcaacc ctttaggga 
ctgttgtaa aaatgtttg ttatcatgt acgatctca 
gcgacatgc cgcccaact ctcagacgt tcatccggc 
aaaggacgc tctacatgc ccaccaatt acaaggagg 
cgaacgcgg aatgggggc ctaagtggc tgcgctatc 
tcgttcatt tgaggttta tcagttcca agtccggaa 
agatttatc tgcacagcg acatacgga tgataattt 
tccgtaaaa gtgacctgg acacggcca cagcgcacg 
gcattgata tgagctacg agctgcgca gcttcactc 
acatgccag tcaatccta ggttttccc ccaggaagt 
aactagaag tcaaattag aagaagaat caccacgaa 
ttcccagaa gcgtattca atctacatt atcatattt 
gctgttcgt tatttagtt gtttcgtgc agaagtgat 
ggatttaga ggtttcttt gcgaatatt cgttaggaa 
aatatagct cacaactgc cattgttgt aaatatatg 
taaatattg attctgttt ggattttta aggacaata 
ctggtaaac atcggttca tttgacgaa gtcttagaa 
ttaggcgtt gattatttt ttaactacg tggaattgg 
caacttcaa atttttaga gtagcacca gtatctaca 
tcatattga caacatata aagttataa ttattatga 
gtatcagag atatttatt ataatagaa ttatactaa 
ttttgtatt agtaatgaa aataaatgt gcaaaaata 
tc
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