Status
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Gene information
General information
TC000537 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: 10107053..10109028
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
    		TC000537
    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
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00122

    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: 100.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 8 (9 dpi)
    Days post injection

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

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 90.0% (includes death as larva, prepupa, pupa, adult)

    pupation delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000537 RA
      MEFSMKNFK FYPICPTFL VLLSVTCSS EVSRPRGVS 
LSRASLYNP DRNFLCFDN SKSIPFSQV NDEYCDCPD 
GSDEPGTSA CPNGVFHCT NAGHKPLNL AASRVNDGI 
CDCCDGSDE YAGNTVTTC PNICLQLGR HAREEAQKL 
AEIIKAGKQ LKAELSQKG LRLKEEKKE KLVELQKNK 
EEAEKVKAE KQRIKDEIE ALENKSLEV YRKLEEEEK 
QRKAEAEAQ KTRQEATET FTKFDSNQD GLVDIAELQ 
TRQSFDKDR NGEVSVEEA KYFLNNQES VDLETFISD 
AWANIKPYL MMDAGLFKP PVPQDGEAE DLQDGDDEH 
DGAPEGDEG EEEEEPYQP EEEPEETKL QYDEETQKI 
VDQATAARN EFTDAERAV REIESEIGN INDYLEKDF 
GPEEEFATL QGECFDYTD HEYIYKLCP FEKATQQPK 
SGSSETRLG TWARWNGPE DNKYGSMLY DKGQSCWNG 
PPRSTKVNI VCGTESKVT AVSEPNRCE YLFEFVTPA 
ACREIPSEA DDLHDEL
    CDS sequence
    • >TC000537 RA
      atggagttc tctatgaaa aactttaaa ttttaccca 
atttgcccg acattttta gtgctgttg agtgtcaca 
tgcagttcc gaggtgtcc aggcctcgc ggggtttca 
ctatcgaga gcttcttta tacaatcca gatcgtaat 
tttttatgt tttgataac agcaaaagc atacctttt 
tcgcaagta aatgacgag tattgcgac tgtcccgat 
ggcagcgac gagccaggg acgtcggcg tgccccaat 
ggggttttt cactgcacc aacgccggc cataaaccc 
ttgaattta gccgcgagc cgagttaac gacgggatt 
tgcgactgt tgtgacggg agcgatgaa tacgccgga 
aacactgtg accacgtgc cccaacatt tgcctgcaa 
ttggggcga cacgccaga gaggaagcc caaaagctg 
gcggaaatt atcaaagcc ggcaaacag ctcaaagct 
gagcttagc cagaaaggt ttgagactg aaagaagag 
aagaaggag aagttggtg gagttgcaa aagaacaaa 
gaagaggct gagaaagtt aaagccgag aaacagaga 
attaaagat gagattgaa gcgcttgaa aacaagtca 
cttgaagtt taccggaag ctggaagag gaagagaag 
cagcgcaaa gctgaggcc gaagcacag aaaacgaga 
caggaggcc actgaaacg ttcacgaaa tttgattcc 
aatcaggat ggcttagtt gatattgca gagctccag 
acgagacaa tcatttgat aaggatagg aacggcgaa 
gtgtcggtg gaagaagct aagtatttt ttgaacaat 
caagaatcc gtggacctt gaaacattt atatcagac 
gcttgggct aacattaag ccttatcta atgatggat 
gctggttta ttcaaacca ccggtcccc caggatggt 
gaagctgaa gacttgcag gacggagac gacgagcat 
gacggtgct ccagagggc gatgaagga gaggaggag 
gaagagcca taccagcct gaggaagaa ccagaagaa 
acgaaactg cagtacgat gaagaaacg cagaaaatt 
gtagaccaa gccaccgct gcgcggaac gagtttacc 
gacgcggag cgcgcagtg agggaaatt gagtcagaa 
attggcaat attaacgac tacctagag aaggatttt 
gggcccgag gaagaattt gcgaccctt caaggggaa 
tgtttcgac tacaccgac catgagtac atttacaaa 
ctgtgtccc tttgaaaag gcgacacaa cagcccaaa 
tccggctct tctgagacc agattagga acgtgggcg 
agatggaac ggccctgaa gacaataaa tacggttcc 
atgctgtac gacaaaggg cagagctgc tggaatggc 
cctccgagg tcgacaaaa gtgaatatt gtgtgcggt 
actgaaagt aaagtgact gcggtttct gaacctaat 
aggtgcgaa tatttgttc gagtttgta acgcctgca 
gcttgcaga gaaattcca agtgaagct gatgattta 
cacgatgaa ttgtag
    mRNA sequence
    • >TC000537 RA
      aggtgtact tcaattttc actgacgtg tcctttcat 
ccgcgcatg ttttgtcgc cccaaacgt caacgtttt 
gaccggtgt tgtgaaacg tgatggagt tctctatga 
aaaacttta aattttacc caatttgcc cgacatttt 
tagtgctgt tgagtgtca catgcagtt ccgaggtgt 
ccaggcctc gcggggttt cactatcga gagcttctt 
tatacaatc cagatcgta attttttat gttttgata 
acagcaaaa gcatacctt tttcgcaag taaatgacg 
agtattgcg actgtcccg atggcagcg acgagccag 
ggacgtcgg cgtgcccca atggggttt ttcactgca 
ccaacgccg gccataaac ccttgaatt tagccgcga 
gccgagtta acgacggga tttgcgact gttgtgacg 
ggagcgatg aatacgccg gaaacactg tgaccacgt 
gccccaaca tttgcctgc aattggggc gacacgcca 
gagaggaag cccaaaagc tggcggaaa ttatcaaag 
ccggcaaac agctcaaag ctgagctta gccagaaag 
gtttgagac tgaaagaag agaagaagg agaagttgg 
tggagttgc aaaagaaca aagaagagg ctgagaaag 
ttaaagccg agaaacaga gaattaaag atgagattg 
aagcgcttg aaaacaagt cacttgaag tttaccgga 
agctggaag aggaagaga agcagcgca aagctgagg 
ccgaagcac agaaaacga gacaggagg ccactgaaa 
cgttcacga aatttgatt ccaatcagg atggcttag 
ttgatattg cagagctcc agacgagac aatcatttg 
ataaggata ggaacggcg aagtgtcgg tggaagaag 
ctaagtatt ttttgaaca atcaagaat ccgtggacc 
ttgaaacat ttatatcag acgcttggg ctaacatta 
agccttatc taatgatgg atgctggtt tattcaaac 
caccggtcc cccaggatg gtgaagctg aagacttgc 
aggacggag acgacgagc atgacggtg ctccagagg 
gcgatgaag gagaggagg aggaagagc cataccagc 
ctgaggaag aaccagaag aaacgaaac tgcagtacg 
atgaagaaa cgcagaaaa ttgtagacc aagccaccg 
ctgcgcgga acgagttta ccgacgcgg agcgcgcag 
tgagggaaa ttgagtcag aaattggca atattaacg 
actacctag agaaggatt ttgggcccg aggaagaat 
ttgcgaccc ttcaagggg aatgtttcg actacaccg 
accatgagt acatttaca aactgtgtc cctttgaaa 
aggcgacac aacagccca aatccggct cttctgaga 
ccagattag gaacgtggg cgagatgga acggccctg 
aagacaata aatacggtt ccatgctgt acgacaaag 
ggcagagct gctggaatg gccctccga ggtcgacaa 
aagtgaata ttgtgtgcg gtactgaaa gtaaagtga 
ctgcggttt ctgaaccta ataggtgcg aatatttgt 
tcgagtttg taacgcctg cagcttgca gagaaattc 
caagtgaag ctgatgatt tacacgatg aattgtaga 
gttttctaa ttgtgaatt tataacttt tatataatc 
catggtagt ttgtacata catttccta aaaatttac 
agtaatttt caagtattg cgcattgtg agataggta 
agtttggta gtttgttta ttttgtgtg gcggaaaat 
cagtgataa tttaagacc aagaacttt gttattagt 
ggaggatca tgtttaaga aaaaattta aataaaagt 
tttgaatta aa

    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