Status
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Gene information
General information
TC011639 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: 15845863..15861627
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
    		TC011639
    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
    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_06531

    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: 10.0% (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

    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011639 RA
      MRETLNASA CAALLDAVN WGDPQLLLS LSILALINV 
MVIVGNCLV IAAVFCSSK LRSVTNLFI VSLAVADLL 
VGVAVLPFS ATWEVFKVW IFGDVWCNM WLALDVWMC 
TASILNLCA ISLDRYVAV TRPITYPSI MSHSRAKLL 
IAGLWVLSF VICFPPLVG WKETERRCP WKCELTNEA 
GYVVYSALG SFYIPMFVM LFFYWRIYR AAIRTTRAI 
NQGFRTTKG SRGFGNRFD EQRLTLRIH RGRGSSDKR 
PHGSPHSNG SNSTTTSSV SPSPSTRGK HERVKISVS 
YPSSENLSP NPNLLAPAS PTQFAVHYS VNGKDTTTA 
LYKRENQLR VQRLSSRRR ASRRSSSGD SERAPSPSP 
SACEEGKKV MSRRMGKRN IKAQVKRFR METKAAKTL 
AIIVGGFIF CWLPFFTMY LVRAFCPDC IPPLLFSIL 
FWLGYCNSA INPLIYALF SKDFRFAFK RIICKCFCK 
GRDGGGRRG SDGSQLQGR QFRSPSYNV QQQGNSLGD 
DSDPGADPS DSR
    CDS sequence
    • >TC011639 RA
      atgcgagaa acactcaac gcatccgcg tgtgcggcg 
cttctcgat gctgtcaat tggggggat ccccaatta 
cttctctcc ttatcaatc ctagctctt atcaatgtt 
atggtcatt gtgggcaac tgtttggtc atagctgcc 
gttttctgc tcctccaaa ctgcgatca gtgacgaac 
ttgttcatc gtttctttg gctgttgcc gatttacta 
gtcggagtt gcagttttg cccttttcg gcgacttgg 
gaagttttt aaggtctgg atattcggc gacgtttgg 
tgcaacatg tggctggct ttggacgtc tggatgtgc 
accgcttcc attctcaat ttgtgtgcc atttctctg 
gaccgttat gtggccgtc acgcgtccc atcacatat 
cccagcatc atgtcccat tccagagcc aagctctta 
atcgctggc ttatgggtg ctcagtttt gttatctgt 
tttccgccg ctggtcggg tggaaagag actgaaaga 
cgttgtcct tggaagtgc gaactgact aacgaggca 
gggtatgtt gtgtattca gcccttggt agcttttac 
ataccgatg tttgtcatg ttgttcttc tactggagg 
atttatcga gcggctata agaaccacc agggcaatt 
aaccaagga tttaggacg accaaaggt tctcgcggt 
ttcggcaac cgtttcgac gagcaacgt ctcacgttg 
cgcattcat cgaggccgt ggctcttca gacaaacgt 
ccccacggc tcccctcac agcaacggc agcaacagc 
accaccaca agcagcgtc agccccagt ccttccact 
cgaggcaaa cacgagcgc gtcaaaatc agcgtcagt 
tatccctcc agcgaaaac ctttcgcct aatccaaac 
ctcctagct cctgcctca cccacacag ttcgccgtt 
cattactcc gtgaacgga aaggacacc accacggcg 
ttgtacaaa cgcgagaac cagctgaga gtgcagaga 
ctgagctcc aggaggagg gcctccagg aggtcaagc 
agtggcgat agcgaacgc gcaccaagt ccgagtccg 
agcgcttgt gaagaaggg aagaaggtg atgtcgagg 
agaatgggc aagaggaac atcaaggcg caagtgaag 
aggtttcgc atggagaca aaggcggcc aaaacgctg 
gcaatcatc gtcggaggt tttatcttc tgttggctt 
ccgtttttc accatgtat ctagtgcgg gcgttttgt 
cccgattgc attccaccg ttgctcttc tccatactc 
ttctggctg gggtattgc aacagtgcc atcaatccg 
ctcatttat gccctcttc tccaaagac ttcagattc 
gccttcaag cgcatcatc tgcaagtgc ttctgcaag 
ggtcgcgat ggaggcggt cgtcgcggt tccgacggt 
tcgcagctc caaggccgc cagttccga tctccaagc 
tacaacgtg cagcagcag ggaaattcg cttggagac 
gacagtgat ccaggcgca gatccgtcg gattcgagg 
tga
    mRNA sequence
    • >TC011639 RA
      tcagtagca cggcgtcgt ccgaagtgt tcgctcacg 
tcgcgacgc gcctaaagc gctcgtaat tccagtgat 
tttcattca aaccttatg ctggcccac actgcacca 
caaagggtt tcccaatta agaagatga ggtcgtctc 
gagataaac aagcagcga aggcattat ggaaacgac 
gaacgatct aacgagatt accgtgtct gtgttgtaa 
ataatttcc tttcgagga gaatgtctg tgattcggt 
cgatttaat tttcggtgg tgatggtgc taagacctc 
gaaaagtgc taatgtgat gcgagaaac actcaacgc 
atccgcgtg tgcggcgct tctcgatgc tgtcaattg 
gggggatcc ccaattact tctctcctt atcaatcct 
agctcttat caatgttat ggtcattgt gggcaactg 
tttggtcat agctgccgt tttctgctc ctccaaact 
gcgatcagt gacgaactt gttcatcgt ttctttggc 
tgttgccga tttactagt cggagttgc agttttgcc 
cttttcggc gacttggga agtttttaa ggtctggat 
attcggcga cgtttggtg caacatgtg gctggcttt 
ggacgtctg gatgtgcac cgcttccat tctcaattt 
gtgtgccat ttctctgga ccgttatgt ggccgtcac 
gcgtcccat cacatatcc cagcatcat gtcccattc 
cagagccaa gctcttaat cgctggctt atgggtgct 
cagttttgt tatctgttt tccgccgct ggtcgggtg 
gaaagagac tgaaagacg ttgtccttg gaagtgcga 
actgactaa cgaggcagg gtatgttgt gtattcagc 
ccttggtag cttttacat accgatgtt tgtcatgtt 
gttcttcta ctggaggat ttatcgagc ggctataag 
aaccaccag ggcaattaa ccaaggatt taggacgac 
caaaggttc tcgcggttt cggcaaccg tttcgacga 
gcaacgtct cacgttgcg cattcatcg aggccgtgg 
ctcttcaga caaacgtcc ccacggctc ccctcacag 
caacggcag caacagcac caccacaag cagcgtcag 
ccccagtcc ttccactcg aggcaaaca cgagcgcgt 
caaaatcag cgtcagtta tccctccag cgaaaacct 
ttcgcctaa tccaaacct cctagctcc tgcctcacc 
cacacagtt cgccgttca ttactccgt gaacggaaa 
ggacaccac cacggcgtt gtacaaacg cgagaacca 
gctgagagt gcagagact gagctccag gaggagggc 
ctccaggag gtcaagcag tggcgatag cgaacgcgc 
accaagtcc gagtccgag cgcttgtga agaagggaa 
gaaggtgat gtcgaggag aatgggcaa gaggaacat 
caaggcgca agtgaagag gtttcgcat ggagacaaa 
ggcggccaa aacgctggc aatcatcgt cggaggttt 
tatcttctg ttggcttcc gtttttcac catgtatct 
agtgcgggc gttttgtcc cgattgcat tccaccgtt 
gctcttctc catactctt ctggctggg gtattgcaa 
cagtgccat caatccgct catttatgc cctcttctc 
caaagactt cagattcgc cttcaagcg catcatctg 
caagtgctt ctgcaaggg tcgcgatgg aggcggtcg 
tcgcggttc cgacggttc gcagctcca aggccgcca 
gttccgatc tccaagcta caacgtgca gcagcaggg 
aaattcgct tggagacga cagtgatcc aggcgcaga 
tccgtcgga ttcgaggtg acgtaaccg cagacggca 
cgtttcaca aatgtacct ggacaaaaa ctcggtttt 
taaagtggc catgtgttt gcacggctg acgaagaaa 
cctcgccgg agatggcga ccacatcta gacatacta 
gtctagcat ttatattta ttcgttctt ttttggaga 
gggaaagat taacgactt aactctttt aggataatt 
ttaataatg taagacttc atcacgcac aacggttta 
ttttttaat ttattgatt cgtgcattt gtacattct 
catcatcgc gaccgataa taaaggctg tgtttattg 
tagccaaaa atgttaggt aatttttta tgtcatcag 
atttgatgt ctaatattt aacaacact acctgtcat 
agagtgtgg aggagaaaa agacaaatt atttaaaca 
atgttacat atttgttaa aactgtgtt cgacaatgt 
actctcaat gtaacaagt gtaaataaa acatatacg 
gaaca

    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