Status
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Gene information
General information
TC001105 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: 11002802..11004796
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
    		TC001105
    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 *
    {{ blurReferenceResult }}
    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
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03136

    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: -1.0% (includes death as pupa, adult)

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

    Fertility
    egg chamber degenerated - Number of animals showing the phenotype: 2

    ovary without detectable defects - Number of animals showing the phenotype: 2
    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
    • >TC001105 RA
      MPQSPKKPA PKWHHPSEV MKLHKLKMK KKALQARIA 
GGTLNTSLS DAQDNKNAA LEDIISAKK RKNPFVKTS 
ESKKCKQDV PSSLDESTD QTLFKLLHQ STPSTTCNL 
TSFENILKK EIEPEVVVV KAQGQNDIP IDWTLKTKI 
RLWSEQQFS WSQKLKISE EASGTTGFV RCLDQNTDT 
NLNISPNSK FHQCCLYWQ QPSLPWLTL FPRASGKVS 
ESDSSIVTS VAMKTALQE AWKDSLKSL FQLIRTKQC 
PYFYVCSNN FTVLFRAAG ISGMGDIHA LVTPTTRGF 
RQMLRQEDI EFKMPLKKK RTSDQGYET FDSATGESP 
EDEESPDEQ WLQSMGINA DDIKQINYT QAKIVHKAE 
CEVDNSEQS LVLIEGVEV HALYNFLIN CKSATSLTG 
PLAGIPPTL LAPVAFNGA TLRALKVRE SKVHVDNSY 
YHSLEISGP ILPSTIHNL FSINQSDHS MSATFVNVA 
STLPFSKVL SNEDQDAKR NFIFDKENL SDCGLSRKI 
LGQFCKADV CVTNVECLK YSGDNKTYT WT
    CDS sequence
    • >TC001105 RA
      atgcctcaa agccccaaa aagccggcc ccaaaatgg 
caccacccg tccgaagtc atgaaattg cacaaattg 
aaaatgaag aagaaggcc cttcaggcg cgcattgcg 
gggggcact ctcaacaca tcgctctcc gacgcccag 
gacaacaaa aacgcagct ttagaagac atcatttcg 
gccaaaaaa cgcaaaaac ccgtttgtg aaaaccagc 
gaaagcaaa aaatgcaag caagatgtt ccctctagt 
cttgacgag tcaactgat cagacgtta ttcaagctc 
ttgcatcaa agtactcca agtacgacg tgcaatttg 
acctcattc gagaatatt ttaaagaaa gaaatcgag 
cctgaagtg gtggttgtg aaggcacag ggccagaac 
gatattccc attgactgg actttaaaa accaagata 
cgtttatgg tcagaacag caattttcc tggagccag 
aaattaaaa atcagtgaa gaagcatcg gggacaaca 
ggatttgtt cgttgtttg gaccaaaac actgacaca 
aacttaaat atctcccca aactcaaag tttcaccag 
tgttgtctc tactggcaa caaccgtct ctcccatgg 
ctcactctc tttcctcga gcctctgga aaggtctca 
gagtctgac tcgagcatt gttacgagc gttgcaatg 
aaaaccgcc ttacaagag gcctggaaa gacagttta 
aagtcccta ttccagtta attaggaca aaacagtgt 
ccgtacttt tacgtctgt tctaataac tttactgtg 
ttgtttcgg gcggcggga attagcgga atgggcgat 
atacatgcg ttagttact cccacaact cggggattc 
cgtcagatg ctcagacag gaagatatt gaatttaaa 
atgccgcta aagaagaaa cggacctcg gatcaggga 
tacgaaacg tttgattct gcaaccggg gaatccccc 
gaagacgag gaatcgcca gacgagcag tggttgcaa 
agtatggga attaacgcc gatgacatc aagcaaatt 
aattacacg caagctaag attgtccac aaagctgaa 
tgcgaggtg gacaacagt gagcagagt ctagtctta 
atcgaggga gtggaagtg cacgccctt tacaatttc 
ctgattaat tgtaaaagt gcgacaagt ctgaccggg 
cctttggcg gggattccc cccacgctt ttggcccct 
gtggcgttc aatggagcg acgttgagg gcactgaaa 
gtgcgcgaa agcaaagtc cacgttgac aattcctat 
tatcactcg ctcgaaatt tcgggacca attttaccg 
agcacaatt cataattta ttttcaatt aatcaaagc 
gaccacagt atgagcgct acgttcgtt aatgtggcg 
tccacactg ccgtttagt aaagtttta agtaacgaa 
gatcaagac gcgaagaga aattttatt tttgataag 
gaaaatttg tcagactgt gggttaagc agaaaaatt 
ctggggcag ttttgcaaa gcggacgtt tgtgttaca 
aacgttgag tgtctgaag tatagtggc gacaataaa 
acttacacc tggacgtaa
    mRNA sequence
    • >TC001105 RA
      gcggccata aaatatggt tatgttgtg acgcttcaa 
tgtttcgtt gataaattg tgttgtctg aattaattc 
ttcccattt gtggcttcg agacaatgc ctcaaagcc 
ccaaaaagc cggccccaa aatggcacc acccgtccg 
aagtcatga aattgcaca aattgaaaa tgaagaaga 
aggcccttc aggcgcgca ttgcggggg gcactctca 
acacatcgc tctccgacg cccaggaca acaaaaacg 
cagctttag aagacatca tttcggcca aaaaacgca 
aaaacccgt ttgtgaaaa ccagcgaaa gcaaaaaat 
gcaagcaag atgttccct ctagtcttg acgagtcaa 
ctgatcaga cgttattca agctcttgc atcaaagta 
ctccaagta cgacgtgca atttgacct cattcgaga 
atattttaa agaaagaaa tcgagcctg aagtggtgg 
ttgtgaagg cacagggcc agaacgata ttcccattg 
actggactt taaaaacca agatacgtt tatggtcag 
aacagcaat tttcctgga gccagaaat taaaaatca 
gtgaagaag catcgggga caacaggat ttgttcgtt 
gtttggacc aaaacactg acacaaact taaatatct 
ccccaaact caaagtttc accagtgtt gtctctact 
ggcaacaac cgtctctcc catggctca ctctctttc 
ctcgagcct ctggaaagg tctcagagt ctgactcga 
gcattgtta cgagcgttg caatgaaaa ccgccttac 
aagaggcct ggaaagaca gtttaaagt ccctattcc 
agttaatta ggacaaaac agtgtccgt acttttacg 
tctgttcta ataacttta ctgtgttgt ttcgggcgg 
cgggaatta gcggaatgg gcgatatac atgcgttag 
ttactccca caactcggg gattccgtc agatgctca 
gacaggaag atattgaat ttaaaatgc cgctaaaga 
agaaacgga cctcggatc agggatacg aaacgtttg 
attctgcaa ccggggaat cccccgaag acgaggaat 
cgccagacg agcagtggt tgcaaagta tgggaatta 
acgccgatg acatcaagc aaattaatt acacgcaag 
ctaagattg tccacaaag ctgaatgcg aggtggaca 
acagtgagc agagtctag tcttaatcg agggagtgg 
aagtgcacg ccctttaca atttcctga ttaattgta 
aaagtgcga caagtctga ccgggcctt tggcgggga 
ttcccccca cgcttttgg cccctgtgg cgttcaatg 
gagcgacgt tgagggcac tgaaagtgc gcgaaagca 
aagtccacg ttgacaatt cctattatc actcgctcg 
aaatttcgg gaccaattt taccgagca caattcata 
atttatttt caattaatc aaagcgacc acagtatga 
gcgctacgt tcgttaatg tggcgtcca cactgccgt 
ttagtaaag ttttaagta acgaagatc aagacgcga 
agagaaatt ttatttttg ataaggaaa atttgtcag 
actgtgggt taagcagaa aaattctgg ggcagtttt 
gcaaagcgg acgtttgtg ttacaaacg ttgagtgtc 
tgaagtata gtggcgaca ataaaactt acacctgga 
cgtaattat taatttatt gtactattt ttatttatt 
gaataaaga

    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