Status
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Gene information
General information
TC000175 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_007417.3: 15083452..15090509
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
    		TC000175
    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_00034

    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: 10.0% (includes death as pupa, adult)

    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: 20.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000175 RA
      MWYFLALLH LTLAEPKGS GYSIFLEHT PSWDRRPYG 
YGPAAPVAF DPFNNNNFL PQPQPQPPT PDPATLGCG 
TPPAGCPKS RYRSYDGSC NNLGNPILG TPQTRYARL 
LPANYADGV STPTASVTG KPLPGSRIV SLLIYPDVQ 
IEDPKFTIN AMQYGQIIT HDMSMIAGS TQAQPHQTK 
CCTADGQLL EFANIPEHC FPIVLPNDD PAHSQTNAK 
CMNFVRTIT DRDRNCVGG SQPAEQLTA VNHYLDLSI 
VYGNSDQIN QQVRQFQGG RLRVEVRDG KEWLPRSTN 
ASGVCSIQS PQEVCYLAG DARVNQNPQ LTILQIILM 
REHNRIADA LAKLNPHWD DETIFQEAR RIAIAEHQF 
ISYYEWLPI FIGIENSLK NKIIYLSKH FINDYRQEV 
DPTVLNEHA TAAFRYFHS LIAGHLDLV NEHRSSYGN 
LRLSDWFNR PAIVEQGDN FDELTRGLA TQPELASDP 
YHDSEITQF LFRDGQQFG SDLKAIDIQ RNRDHGLAS 
YNEYRGFCG LPRAHSFED FLDVMTQDN VKKLATLYE 
SPDDVDLTV GGSLEAHVP GTLSGPTFL CILTEQFYR 
TRVGDRFWF ENQHNGFTL AQLNAIRKT SISRLLCDN 
GHHIQAMQP RGFERISHD NPITPCENL PAVDLTLWK 
EVPFGVERP YDFGSDFSD EFFWKKK
    CDS sequence
    • >TC000175 RA
      atgtggtac ttcctggcc cttctccac ttgacctta 
gctgaaccc aaaggctcg ggttatagc attttcctc 
gaacacacg ccaagttgg gacaggaga ccttacggt 
tacggacct gcggcacca gtggccttt gaccctttc 
aacaataac aatttcttg ccacaacca caaccacaa 
cccccaaca cccgatccg gcaacctta ggctgtggt 
accccacca gcagggtgc cccaaatcg aggtaccgc 
tcctacgat ggttcctgt aataactta gggaaccca 
attttgggt actccacag acacgatac gcgaggctt 
ctaccggcg aattacgcc gatggggtg agcaccccc 
acagcttca gtaacggga aaaccgctc ccaggctct 
cgaatagtc agtcttttg atttatccc gatgtacaa 
attgaagat cccaaattt acaattaat gccatgcaa 
tatgggcaa ataatcacc catgatatg agcatgatt 
gcgggaagt acccaagca cagccccat cagaccaag 
tgttgtacg gccgatggt caattgctc gagtttgcc 
aacataccg gaacattgt ttccctata gtgttgccc 
aacgatgac cccgctcac tcccagacg aatgcaaag 
tgcatgaat tttgtaaga acgatcact gatcgtgat 
cgcaactgt gttggaggc tcacaaccg gctgaacaa 
ttaactgca gttaaccat tacttggac ttatcgata 
gtttacggt aacagcgac caaatcaac caacaagtc 
cggcaattc caaggcgga agacttaga gttgaagta 
cgagatggg aaagaatgg ttaccgagg agtactaac 
gctagtggc gtttgttct attcaaagc ccacaagaa 
gtttgctat ttagctggg gacgctcga gtcaaccaa 
aacccacaa ttgacaatc cttcaaatc attcttatg 
agagaacac aatcgaatt gctgacgct ttggccaaa 
ttgaatcca cattgggac gacgaaact attttccag 
gaagctaga agaattgca atcgccgaa caccaattt 
atttcatac tacgaatgg ttgccgatt ttcattgga 
attgaaaat tcgctcaag aacaaaatt atctatttg 
agcaaacat tttatcaac gattatcga caagaagtt 
gacccgacg gtgcttaac gaacacgca acggccgct 
ttcagatat ttccattcg ctaattgca gggcatttg 
gatttggta aacgagcac cgcagcagc tacggcaac 
ttgcgtctc agtgattgg tttaaccgt cctgctatt 
gtcgaacag ggcgacaat ttcgatgaa ttgactcga 
ggtttggcc actcagccg gaactcgct tctgatcct 
taccatgac agtgagata acacagttt ttgttccga 
gacggacaa caattcggt tcggatttg aaagccatt 
gatatccaa cgtaatcgc gaccatgga cttgcctcc 
tataacgaa tatcgaggt ttttgtgga ttgcccaga 
gcccacagt tttgaagat ttcctcgat gttatgaca 
caagacaat gtgaaaaaa ttggcgaca ctgtacgaa 
agtcccgac gatgttgat ttaacagtt ggtggttcg 
ttggaagcc catgttccg ggtacttta tcaggacca 
acattcttg tgtattttg actgaacag ttctataga 
actcgagtt ggggatagg ttttggttc gagaatcaa 
cacaacgga ttcacttta gcacaatta aacgcaatt 
cgtaaaacg agcatttcg agattatta tgcgacaat 
ggccatcac atccaagcc atgcaacca agaggcttt 
gaaagaata tctcacgat aatccgatt acaccgtgc 
gaaaatttg ccagctgtt gatctcact ttgtggaag 
gaagttccg tttggtgtc gaacgtccg tacgatttc 
gggtcggac ttttccgat gaattcttt tggaagaag 
aaataa
    mRNA sequence
    • >TC000175 RA
      ttgtgtttg tggtgctcg acaaaacca ggattattt 
ttttgacat agtttgtag gaaattaag agtcaccat 
gtggtactt cctggccct tctccactt gaccttagc 
tgaacccaa aggctcggg ttatagcat tttcctcga 
acacacgcc aagttggga caggagacc ttacggtta 
cggacctgc ggcaccagt ggcctttga ccctttcaa 
caataacaa tttcttgcc acaaccaca accacaacc 
cccaacacc cgatccggc aaccttagg ctgtggtac 
cccaccagc agggtgccc caaatcgag gtaccgctc 
ctacgatgg ttcctgtaa taacttagg gaacccaat 
tttgggtac tccacagac acgatacgc gaggcttct 
accggcgaa ttacgccga tggggtgag cacccccac 
agcttcagt aacgggaaa accgctccc aggctctcg 
aatagtcag tcttttgat ttatcccga tgtacaaat 
tgaagatcc caaatttac aattaatgc catgcaata 
tgggcaaat aatcaccca tgatatgag catgattgc 
gggaagtac ccaagcaca gccccatca gaccaagtg 
ttgtacggc cgatggtca attgctcga gtttgccaa 
cataccgga acattgttt ccctatagt gttgcccaa 
cgatgaccc cgctcactc ccagacgaa tgcaaagtg 
catgaattt tgtaagaac gatcactga tcgtgatcg 
caactgtgt tggaggctc acaaccggc tgaacaatt 
aactgcagt taaccatta cttggactt atcgatagt 
ttacggtaa cagcgacca aatcaacca acaagtccg 
gcaattcca aggcggaag acttagagt tgaagtacg 
agatgggaa agaatggtt accgaggag tactaacgc 
tagtggcgt ttgttctat tcaaagccc acaagaagt 
ttgctattt agctgggga cgctcgagt caaccaaaa 
cccacaatt gacaatcct tcaaatcat tcttatgag 
agaacacaa tcgaattgc tgacgcttt ggccaaatt 
gaatccaca ttgggacga cgaaactat tttccagga 
agctagaag aattgcaat cgccgaaca ccaatttat 
ttcatacta cgaatggtt gccgatttt cattggaat 
tgaaaattc gctcaagaa caaaattat ctatttgag 
caaacattt tatcaacga ttatcgaca agaagttga 
cccgacggt gcttaacga acacgcaac ggccgcttt 
cagatattt ccattcgct aattgcagg gcatttgga 
tttggtaaa cgagcaccg cagcagcta cggcaactt 
gcgtctcag tgattggtt taaccgtcc tgctattgt 
cgaacaggg cgacaattt cgatgaatt gactcgagg 
tttggccac tcagccgga actcgcttc tgatcctta 
ccatgacag tgagataac acagttttt gttccgaga 
cggacaaca attcggttc ggatttgaa agccattga 
tatccaacg taatcgcga ccatggact tgcctccta 
taacgaata tcgaggttt ttgtggatt gcccagagc 
ccacagttt tgaagattt cctcgatgt tatgacaca 
agacaatgt gaaaaaatt ggcgacact gtacgaaag 
tcccgacga tgttgattt aacagttgg tggttcgtt 
ggaagccca tgttccggg tactttatc aggaccaac 
attcttgtg tattttgac tgaacagtt ctatagaac 
tcgagttgg ggataggtt ttggttcga gaatcaaca 
caacggatt cactttagc acaattaaa cgcaattcg 
taaaacgag catttcgag attattatg cgacaatgg 
ccatcacat ccaagccat gcaaccaag aggctttga 
aagaatatc tcacgataa tccgattac accgtgcga 
aaatttgcc agctgttga tctcacttt gtggaagga 
agttccgtt tggtgtcga acgtccgta cgatttcgg 
gtcggactt ttccgatga attcttttg gaagaagaa 
ataaattgt tgtgattgt ctcagacaa ttgttttgt 
gcctaaata tttttattt gtttttatt tgtacattt 
tctagttaa gttcatgtt aatactagg ctttatttg 
atagaactt cgaaagtcg aatattatt tgcacttta 
atttatgtt ttatctaat tttgtatat ttatgacag 
tattaataa aaaactcta ttttcg

    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