Status
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Gene information
General information
TC003702 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: 12931086..12935683
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
    		TC003702
    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
    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_03603

    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)

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 80.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003702 RA
      MSGDLNQEI IAYHIEETK INTEVDATS AEPIPDRST 
LEDILKSSR EQRTSDEKN EGSAQSDKS KSVKYTPSD 
EKLELQSVN IHDLAVLMK RETDELAVE DIFSLRSED 
KSIDTVSVS YLKPPARYP DSVQDQEFE VDNESVYSF 
LMKRESEET LTTPAQSPE KSSESIPKD EKQIDRNMY 
YELHRLYTA NYNTQKWKN NYLQKKLAQ YYNRRKMYH 
VFVVDKSQQ EYAKMYEKL LESFAVKQD EVAREQAAL 
ENEISVLRN KHRAKSEEV ANLLVELQQ AEADVSKQF 
SYTVLNAAK MVERFLKRQ RMQLTRFKE MHLAYIKLR 
NKNNEAQDT LDSLDNLGP NCRLIDYEQ LKTDNRNLY 
EKLEEKELY LNSLRQECR NVMQILAHT REKTNVVNL 
DIMKYQEQL DLVLADGME AREQLSMMK HERDYIRRQ 
INKLKLETG LLGRPKLLR DLERSMEEV EEGLDQLEE 
YKEACEVAS ETMVAVRKY ISRLSETGE SGKITKRIQ 
F
    CDS sequence
    • >TC003702 RA
      atgtctgga gatttaaat caagaaatt attgcatat 
catatagag gaaactaaa atcaacact gaagtggat 
gcaacttct gccgaaccc attcctgat agatccact 
ttggaagac atattaaaa agtagtagg gaacagaga 
accagcgat gaaaaaaac gaaggttca gctcaaagt 
gacaagagc aaaagtgtt aaatataca ccaagcgat 
gaaaaactg gaactacaa agtgtaaat atccatgac 
ttggctgta cttatgaaa cgcgagact gacgaactg 
gccgttgaa gatattttt tctttacga agcgaagac 
aaatctata gatacagtc agtgtttct tacttgaaa 
ccacctgct cgctaccct gactctgtt caggaccag 
gaattcgaa gtagacaat gagtctgtt tattccttt 
cttatgaaa cgagaatcc gaagaaact ctaacaaca 
ccggcacaa agtcccgaa aaatcatcg gaatctatc 
cccaaagac gagaaacaa atcgacagg aacatgtac 
tacgaactg cacaggtta tacactgcg aactacaac 
acccagaag tggaagaac aattacctt cagaagaag 
ttagcacag tactataac cgccgaaag atgtatcat 
gtgtttgtc gtggacaag tcccaacag gagtacgcc 
aagatgtat gaaaaactt ctagaatcg tttgcagtc 
aaacaggac gaagttgca agagaacaa gcagcgttg 
gagaacgaa ataagcgtt ctgcgcaac aaacatcgc 
gccaaaagt gaagaagtt gccaacctc ctggtggaa 
ctccagcaa gccgaagca gacgtgagc aagcagttc 
agctacacg gttctaaat gctgcgaaa atggtcgaa 
cgattcctc aaacgccag cggatgcag ctgacacgt 
ttcaaggaa atgcatctt gcttacata aaattgcga 
aacaagaac aacgaagcg caagatact ttggattcg 
cttgataac ttgggcccc aactgccgc ctaatcgac 
tacgaacag ctgaaaacg gataacagg aacctttac 
gaaaagctg gaggagaag gaattgtac ttaaactcg 
ttaagacag gagtgtcga aacgtgatg cagatcttg 
gctcatacg agggaaaag acgaatgtt gtgaatttg 
gacattatg aagtatcag gagcagctc gatttggtg 
ttagcagat ggcatggaa gcacgggaa cagttgagt 
atgatgaag catgagagg gattacatc aggcggcag 
ataaataaa ctaaagctt gagactggt ttgcttgga 
cgaccaaaa ctgttaagg gatttggaa aggtcgatg 
gaagaagtg gaggaaggg ttggatcaa ctagaggag 
tataaagaa gcttgtgag gtggcatct gaaaccatg 
gtagctgtg aggaaatat attagcaga ttgagcgag 
acaggggag tcaggaaag attacgaaa agaattcag 
ttctga
    mRNA sequence
    • >TC003702 RA
      tcaattttt tatgtaatt ttttacgcg atttatagt 
tttttgtga tgtctggag atttaaatc aagaaatta 
ttgcatatc atatagagg aaactaaaa tcaacactg 
aagtggatg caacttctg ccgaaccca ttcctgata 
gatccactt tggaagaca tattaaaaa gtagtaggg 
aacagagaa ccagcgatg aaaaaaacg aaggttcag 
ctcaaagtg acaagagca aaagtgtta aatatacac 
caagcgatg aaaaactgg aactacaaa gtgtaaata 
tccatgact tggctgtac ttatgaaac gcgagactg 
acgaactgg ccgttgaag atatttttt ctttacgaa 
gcgaagaca aatctatag atacagtca gtgtttctt 
acttgaaac cacctgctc gctaccctg actctgttc 
aggaccagg aattcgaag tagacaatg agtctgttt 
attcctttc ttatgaaac gagaatccg aagaaactc 
taacaacac cggcacaaa gtcccgaaa aatcatcgg 
aatctatcc ccaaagacg agaaacaaa tcgacagga 
acatgtact acgaactgc acaggttat acactgcga 
actacaaca cccagaagt ggaagaaca attaccttc 
agaagaagt tagcacagt actataacc gccgaaaga 
tgtatcatg tgtttgtcg tggacaagt cccaacagg 
agtacgcca agatgtatg aaaaacttc tagaatcgt 
ttgcagtca aacaggacg aagttgcaa gagaacaag 
cagcgttgg agaacgaaa taagcgttc tgcgcaaca 
aacatcgcg ccaaaagtg aagaagttg ccaacctcc 
tggtggaac tccagcaag ccgaagcag acgtgagca 
agcagttca gctacacgg ttctaaatg ctgcgaaaa 
tggtcgaac gattcctca aacgccagc ggatgcagc 
tgacacgtt tcaaggaaa tgcatcttg cttacataa 
aattgcgaa acaagaaca acgaagcgc aagatactt 
tggattcgc ttgataact tgggcccca actgccgcc 
taatcgact acgaacagc tgaaaacgg ataacagga 
acctttacg aaaagctgg aggagaagg aattgtact 
taaactcgt taagacagg agtgtcgaa acgtgatgc 
agatcttgg ctcatacga gggaaaaga cgaatgttg 
tgaatttgg acattatga agtatcagg agcagctcg 
atttggtgt tagcagatg gcatggaag cacgggaac 
agttgagta tgatgaagc atgagaggg attacatca 
ggcggcaga taaataaac taaagcttg agactggtt 
tgcttggac gaccaaaac tgttaaggg atttggaaa 
ggtcgatgg aagaagtgg aggaagggt tggatcaac 
tagaggagt ataaagaag cttgtgagg tggcatctg 
aaaccatgg tagctgtga ggaaatata ttagcagat 
tgagcgaga caggggagt caggaaaga ttacgaaaa 
gaattcagt tctgagcaa gtgggtttt agagaatgt 
aatgtaggt gttaataaa ttcgctagc tcttt

    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