Status
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Gene information
General information
TC011653 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_007424.3: 16045597..16048069
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
    		TC011653
    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_05067

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011653 RA
      MNVTILLMV LSSPSLLFA SNFDNSKRK KAFLVKKHL 
KRLKKVEGG VKLIGGRDE FEGNVEILH EGQWGAICD 
DEWDSSEAH VVCQQLGYP KDSGKATVS SYFGPAKRK 
FWMDNVFCS GNESEIIDC RFDGWGNND CTSTEAAGV 
ICHEEKPKE ETTKKVEAP LARHEIRLK GGRVKSEGR 
VEIKNEKGQ WASICGDGW SLLEGLVVC KHLGLGYAS 
DAPQTDFFG GNITDSSYS GVRCRGNET SFGQCVHDL 
TSRGKCQSR DVAAVSCVS QMSDLVIDH IDLMRTAHL 
EDRQLFFLQ CAMEENCLA SEAYKIQKE DGSWHLETR 
RLLRFTARI FNAGTADFR PTIPKHLWE WHMCHMHYH 
SMEVFATFD IYDTKGLRV AEGHKASFC LEDNQCLPG 
VKPRYACAN YGDQGISVN CSDIYKYTV DCQWVDISE 
LEPGIYTLK VAINPEFKV PEITFENNA AVCQFIYSE 
TFGTVTNCT VQRP
    CDS sequence
    • >TC011653 RA
      atgaatgtt acaattctt ttaatggtt ttatcgtct 
cccagtctt ctatttgcc tccaacttt gataattca 
aaacgcaaa aaagctttt ctcgtgaaa aaacatctc 
aaaagactt aaaaaagtc gaaggtggg gttaaacta 
attggagga agggatgaa tttgaaggt aacgttgaa 
attttgcat gagggccaa tggggagct atttgtgac 
gatgaatgg gactcatct gaggcacat gtcgtttgc 
caacaactg ggttacccc aaagattcc ggaaaagct 
actgttagt tcatatttc ggtcccgcg aaacgcaaa 
ttttggatg gataatgtt ttttgtagc ggcaacgag 
agtgaaata atcgattgt cgcttcgac ggttggggc 
aacaatgat tgtacctcg acggaagca gctggagtt 
atctgtcac gaagaaaag ccaaaagag gaaacgacg 
aagaaggtg gaggcgccg ctggcccga cacgagatt 
cgactaaag ggcggaagg gtcaaaagt gaaggtcgc 
gtcgagata aaaaatgaa aagggtcaa tgggcgagt 
atttgcgga gacgggtgg tcacttctc gagggcttg 
gtcgtctgt aaacacctt ggattagga tacgccagt 
gatgcacct caaaccgat ttcttcgga ggaaacatc 
accgatagt agttattcc ggtgtgaga tgtcgcgga 
aacgaaact tctttcgga cagtgtgtt cacgacctg 
acctcgagg ggaaaatgt caaagtaga gatgttgca 
gccgtttcg tgtgtttct caaatgtcc gatttggtc 
atcgatcac atcgatctg atgcgaaca gcacattta 
gaggaccga caattattt tttcttcag tgtgcaatg 
gaagaaaat tgtctcgca tctgaagcc tacaaaatc 
caaaaagaa gacggttct tggcatttg gaaacgcga 
agacttctc agatttacg gcgaggatt tttaacgcc 
gggacggcc gatttcagg ccaactata cccaaacat 
ttgtgggaa tggcacatg tgccacatg cactaccac 
agcatggag gtattcgcg acgtttgat atttacgac 
acgaagggt cttagagtg gccgaaggt cataaagcg 
tctttttgt ctcgaagat aatcaatgt ctgcctgga 
gtcaaaccg agatatgct tgtgcgaat tacggtgat 
caggggatt tcagtcaat tgtagcgat atttacaag 
tacactgtc gactgtcaa tgggtcgat atatccgaa 
ctcgaaccg gggatttac acgctcaaa gtcgccatc 
aatcccgaa ttcaaagtg cctgaaatt accttcgaa 
aataacgcg gccgtttgt caatttatc tattcggaa 
acgttcgga accgtcacg aattgcacc gtccaaagg 
ccctga
    mRNA sequence
    • >TC011653 RA
      aatcacatt tataataaa atcatgaat gttacaatt 
cttttaatg gttttatcg tctcccagt cttctattt 
gcctccaac tttgataat tcaaaacgc aaaaaagct 
tttctcgtg aaaaaacat ctcaaaaga cttaaaaaa 
gtcgaaggt ggggttaaa ctaattgga ggaagggat 
gaatttgaa ggtaacgtt gaaattttg catgagggc 
caatgggga gctatttgt gacgatgaa tgggactca 
tctgaggca catgtcgtt tgccaacaa ctgggttac 
cccaaagat tccggaaaa gctactgtt agttcatat 
ttcggtccc gcgaaacgc aaattttgg atggataat 
gttttttgt agcggcaac gagagtgaa ataatcgat 
tgtcgcttc gacggttgg ggcaacaat gattgtacc 
tcgacggaa gcagctgga gttatctgt cacgaagaa 
aagccaaaa gaggaaacg acgaagaag gtggaggcg 
ccgctggcc cgacacgag attcgacta aagggcgga 
agggtcaaa agtgaaggt cgcgtcgag ataaaaaat 
gaaaagggt caatgggcg agtatttgc ggagacggg 
tggtcactt ctcgagggc ttggtcgtc tgtaaacac 
cttggatta ggatacgcc agtgatgca cctcaaacc 
gatttcttc ggaggaaac atcaccgat agtagttat 
tccggtgtg agatgtcgc ggaaacgaa acttctttc 
ggacagtgt gttcacgac ctgacctcg aggggaaaa 
tgtcaaagt agagatgtt gcagccgtt tcgtgtgtt 
tctcaaatg tccgatttg gtcatcgat cacatcgat 
ctgatgcga acagcacat ttagaggac cgacaatta 
ttttttctt cagtgtgca atggaagaa aattgtctc 
gcatctgaa gcctacaaa atccaaaaa gaagacggt 
tcttggcat ttggaaacg cgaagactt ctcagattt 
acggcgagg atttttaac gccgggacg gccgatttc 
aggccaact atacccaaa catttgtgg gaatggcac 
atgtgccac atgcactac cacagcatg gaggtattc 
gcgacgttt gatatttac gacacgaag ggtcttaga 
gtggccgaa ggtcataaa gcgtctttt tgtctcgaa 
gataatcaa tgtctgcct ggagtcaaa ccgagatat 
gcttgtgcg aattacggt gatcagggg atttcagtc 
aattgtagc gatatttac aagtacact gtcgactgt 
caatgggtc gatatatcc gaactcgaa ccggggatt 
tacacgctc aaagtcgcc atcaatccc gaattcaaa 
gtgcctgaa attaccttc gaaaataac gcggccgtt 
tgtcaattt atctattcg gaaacgttc ggaaccgtc 
acgaattgc accgtccaa aggccctga tgcacaatt 
catattaca aaaatgtat tttcctatt actaaaaaa 
ataaagtcc taaactggg g

    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