Status
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Gene information
General information
TC003293 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: 821683..829226
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
    		TC003293
    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
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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_06877

    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: 30.0% (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: 1 (11 dpi)
    Days post injection

    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
    • >TC003293 RA
      MSKPRNPKI HNVRFYKPK PNAVYCMAL QPQGNKLAV 
SRADASVEI WNLTHCAFI ERTIASSTE NFSIEGLAW 
CDDRLFSVG LHGLLIEYD LMKLDLKSR SVVTGEAAF 
CLDVNKEKT QIAIGTEQG YLNIFQITE DEVLFEKFL 
DKQEGRILC LKFDNSGEF IVSGSMDAI RIWSVKTNQ 
ALHKMIPGR AEHNKPTIV WCLAITQDF TVISGDSRG 
ILTVWDGKV GAQLESYQS HRADILSLC LSEDENSLY 
CAGIDPNVV NYVRIEVKD GAHKWVRSI QRKIHDHDV 
RALVLNGNK LYSSGVDGY LTCSYHPPK TLLKYPPIL 
QNPCVTICA KGRYVMLRY PKLIEIWSL GEIGSDRDK 
HTGLYNVEK APRKLVALQ KVVTDDEGV EKHEGIICS 
TISDDGTLI LYSTRLGVR LLKLDCGES TPKLVPIET 
DGLGVSPCV SAKFTKNNR LILAPNSGG LQVVAISSC 
NAVLMQNIN TETEIEDMI VLLAVSDSA QFLVGGDVR 
GNIAVWTLK NDQYVFHCK LPKYKLSPT AIAIQPNSA 
NLVVAFNNN NIIEYDMNR RELTKFSRS LAKNLPKQL 
TSRVSPIRN ITFDSRVKD VIILHDDDS VLVVDKEKT 
TTNRESKVR KIDGESKEQ FAVRCIKKF KHLVHLSWI 
SDDEMVAVE VNPLSLIEQ LPPCLVQNT FGRK
    CDS sequence
    • >TC003293 RA
      atgagtaaa ccgaggaac ccgaagata cacaatgtt 
aggttttac aaacctaaa ccgaatgca gtttactgt 
atggctctc caaccccag ggcaataag ttagctgtg 
tcaagggct gacgcaagt gtcgaaata tggaacttg 
actcactgt gcctttatc gaacgtaca attgcttcc 
tcgactgag aatttcagt attgaaggt ctcgcatgg 
tgcgatgat cgcttattt agtgtgggg cttcatggg 
cttttaatt gagtacgat ttaatgaaa ttggatctg 
aaaagtcgg tctgtggtc accggcgag gcagcgttt 
tgtctggat gttaataaa gaaaaaact caaattgca 
attgggact gaacaaggc tatttgaac atttttcaa 
attaccgag gatgaggtc ctgtttgaa aagttttta 
gataagcag gaagggcgc attttatgt ctaaagttt 
gataattca ggcgaattt atcgtttct ggaagtatg 
gatgcgatc cgaatttgg agcgtcaaa accaatcaa 
gcgttgcat aaaatgatc cctggtcgt gctgaacac 
aacaaacca acaatagtg tggtgtctt gccatcaca 
caagacttt acagtaatc agtggcgat tcccggggc 
attctcacc gtctgggat ggcaaagtg ggcgctcaa 
cttgaatcg taccaatca catcgtgca gatattctt 
tcactttgc ctgtcagag gacgaaaac tcactttat 
tgcgctggt atagaccca aatgtggtc aattatgtg 
cgaattgaa gtcaaagac ggagctcat aaatgggtg 
cgtagcatc caaagaaaa attcacgac cacgatgtg 
cgcgctctt gttctcaat ggcaataaa ttgtactcg 
agcggagtc gatggctac ttgacttgt agttatcat 
ccgccgaaa actctcctt aagtatcca ccaattttg 
caaaaccct tgtgtgact atttgtgca aaagggcga 
tacgtgatg ttacgttac cccaaatta atcgaaatt 
tggagtctt ggagagatt gggagcgat cgtgataaa 
cacacggga ctctacaat gtggagaaa gctcctcgg 
aaattggtg gcgttgcaa aaagttgtc actgacgat 
gagggagtt gaaaaacac gaagggatt atttgtagt 
acgatttcg gacgatggt actttaatt ttgtacagt 
acaagacta ggagttagg ttacttaag ttagattgt 
ggggaaagt accccaaaa ttggtgccg attgagaca 
gacgggtta ggggtgtct ccatgcgtt agtgcaaaa 
tttacgaaa aataatcgc ttgattttg gcgccaaat 
tcggggggt ttacaggtt gttgcaata agtagttgc 
aacgccgtc ttgatgcaa aatatcaat acagaaaca 
gaaattgag gatatgatt gtgttattg gcggtctct 
gactctgcc cagtttttg gtaggtggt gatgttaga 
ggtaatatt gctgtgtgg actttaaaa aatgaccaa 
tatgttttt cactgtaaa ttacccaaa tataaatta 
agtcccact gcgatagcc attcaaccg aattcagcg 
aatctagta gttgcgttt aataataat aacattatt 
gaatatgat atgaatagg agagaatta acgaaattt 
tccagatct ttggcgaaa aatcttccg aaacaattg 
acgtctaga gtttcccca attcgcaat attactttt 
gattctagg gtaaaagat gttattatt ttacatgat 
gatgatagc gttttggtc gtcgacaaa gaaaagact 
acaaccaat agggaatcc aaggtgcga aaaatcgac 
ggcgaaagc aaagaacag tttgcagtt cgttgtata 
aaaaaattc aaacacctg gtgcacctg agctggatt 
tccgatgat gaaatggtg gcagtggag gtcaatcct 
ttgagtctc atcgagcaa ctgccccca tgtctggtg 
caaaatact tttggccga aaataa
    mRNA sequence
    • >TC003293 RA
      tacttacac ttttataac aatagacat tttttattt 
gggtcacaa taacaaaaa aattgtaaa aacttcgcg 
cataaaagt gagggcggc accaccaac cggtcgtaa 
ccgaagtta ctagaataa taaacaaca cgtgaaagt 
gaagtttga ggttatgtt tttcatttg tgagtgttt 
tatttattg aaaatgagt aaaccgagg aacccgaag 
atacacaat gttaggttt tacaaacct aaaccgaat 
gcagtttac tgtatggct ctccaaccc cagggcaat 
aagttagct gtgtcaagg gctgacgca agtgtcgaa 
atatggaac ttgactcac tgtgccttt atcgaacgt 
acaattgct tcctcgact gagaatttc agtattgaa 
ggtctcgca tggtgcgat gatcgctta tttagtgtg 
gggcttcat gggctttta attgagtac gatttaatg 
aaattggat ctgaaaagt cggtctgtg gtcaccggc 
gaggcagcg ttttgtctg gatgttaat aaagaaaaa 
actcaaatt gcaattggg actgaacaa ggctatttg 
aacattttt caaattacc gaggatgag gtcctgttt 
gaaaagttt ttagataag caggaaggg cgcatttta 
tgtctaaag tttgataat tcaggcgaa tttatcgtt 
tctggaagt atggatgcg atccgaatt tggagcgtc 
aaaaccaat caagcgttg cataaaatg atccctggt 
cgtgctgaa cacaacaaa ccaacaata gtgtggtgt 
cttgccatc acacaagac tttacagta atcagtggc 
gattcccgg ggcattctc accgtctgg gatggcaaa 
gtgggcgct caacttgaa tcgtaccaa tcacatcgt 
gcagatatt ctttcactt tgcctgtca gaggacgaa 
aactcactt tattgcgct ggtatagac ccaaatgtg 
gtcaattat gtgcgaatt gaagtcaaa gacggagct 
cataaatgg gtgcgtagc atccaaaga aaaattcac 
gaccacgat gtgcgcgct cttgttctc aatggcaat 
aaattgtac tcgagcgga gtcgatggc tacttgact 
tgtagttat catccgccg aaaactctc cttaagtat 
ccaccaatt ttgcaaaac ccttgtgtg actatttgt 
gcaaaaggg cgatacgtg atgttacgt taccccaaa 
ttaatcgaa atttggagt cttggagag attgggagc 
gatcgtgat aaacacacg ggactctac aatgtggag 
aaagctcct cggaaattg gtggcgttg caaaaagtt 
gtcactgac gatgaggga gttgaaaaa cacgaaggg 
attatttgt agtacgatt tcggacgat ggtacttta 
attttgtac agtacaaga ctaggagtt aggttactt 
aagttagat tgtggggaa agtacccca aaattggtg 
ccgattgag acagacggg ttaggggtg tctccatgc 
gttagtgca aaatttacg aaaaataat cgcttgatt 
ttggcgcca aattcgggg ggtttacag gttgttgca 
ataagtagt tgcaacgcc gtcttgatg caaaatatc 
aatacagaa acagaaatt gaggatatg attgtgtta 
ttggcggtc tctgactct gcccagttt ttggtaggt 
ggtgatgtt agaggtaat attgctgtg tggacttta 
aaaaatgac caatatgtt tttcactgt aaattaccc 
aaatataaa ttaagtccc actgcgata gccattcaa 
ccgaattca gcgaatcta gtagttgcg tttaataat 
aataacatt attgaatat gatatgaat aggagagaa 
ttaacgaaa ttttccaga tctttggcg aaaaatctt 
ccgaaacaa ttgacgtct agagtttcc ccaattcgc 
aatattact tttgattct agggtaaaa gatgttatt 
attttacat gatgatgat agcgttttg gtcgtcgac 
aaagaaaag actacaacc aatagggaa tccaaggtg 
cgaaaaatc gacggcgaa agcaaagaa cagtttgca 
gttcgttgt ataaaaaaa ttcaaacac ctggtgcac 
ctgagctgg atttccgat gatgaaatg gtggcagtg 
gaggtcaat cctttgagt ctcatcgag caactgccc 
ccatgtctg gtgcaaaat acttttggc cgaaaataa 
atgttttaa taaataacg tgtgttttt

    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