Status
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Gene information
General information
TC013739 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_007420.3: 4974961..4992256
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
    		TC013739
    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 *
    {{ blurReferenceResult }}
    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_08236

    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: 20.0% (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

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    cuticle remnants strongly fragmented (cuticle crumbs) - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - 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: % (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
    • >TC013739 RA
      MGICLDTEQ SDGSQAFEE GQDTWVQNT PRRAEPGST 
TPPTGKLPM QNDTDVQFE SPKVPVIFV LGGPGSGKV 
THCDSLMQE KKGITHINM TDLLQQYAI GNDMQDFGL 
LSSKTVTEV LMLEMKMAP TAKTYLVSG FPRNMRDVV 
EYSEKIQML SGAIMISWR QKVLERQID YGAKLGQVV 
LSLARMELN NFYKNVMPV ADYFDQSNM LISINGERH 
PSNVYKDFR AAVFKILGM QDNPPVFTN GKVATVPSD 
VTTELPTMQ ALPPAHVQN HEPERPKTQ VISVTTNNQ 
HNYQSPVKA GWPPVLWVI GGPGSNKAA LCSQAAKDT 
RWTHISLGK LLRAAAEPP DPRHNSETA KIRESISAG 
ELVPLNVVM KFVESHMAA NMAAPGIIL DGFPRDMTQ 
ATEFEAKFK QKPSIVLLD CSKLQLGRG RLDDSVTAF 
RRRLEIFRQ SSLPMLKTM DNIGRLTIV DGDTDTAPV 
QDDFKGVVK EHIEYIKRQ QQEPAAANG FANGHVPNG 
EATLQDLEA EPIETISKH VGNGVAHSL ANGVRTMAN 
GYTNGHIPN GYARDLPQY TSFDGPDNR QMYNEVNYM 
DGHI
    CDS sequence
    • >TC013739 RA
      atgggaatc tgcttggat acagagcaa agtgatggt 
tctcaagct ttcgaagaa gggcaggac acttgggtg 
cagaacacg ccacgaaga gccgaaccg ggctccaca 
acaccacca accggaaaa ctaccaatg caaaacgac 
acagacgtg cagtttgaa tcgccaaaa gtgccggtt 
atatttgtt ctcgggggc cctggcagc ggcaaggtg 
actcactgt gacagcctt atgcaagaa aagaaaggc 
ataacacac atcaacatg actgacctc ctccaacaa 
tacgccatc ggcaacgat atgcaagat ttcgggctg 
ttgtcgagt aagaccgtc accgaagtg ctcatgctt 
gagatgaag atggcgcca acggccaag acgtatctc 
gtctcgggg tttcccagg aacatgagg gacgtcgtc 
gagtattcg gaaaagatc cagatgtta agcggtgcg 
attatgatc tcttggcgg caaaaagtt ctggaacga 
caaatcgat tacggtgcc aaattaggt caagtggtt 
ttatcattg gccagaatg gaactcaac aatttttac 
aagaatgtg atgccagta gccgactat ttcgaccaa 
agcaatatg ctaatatcg ataaacggc gaacgccat 
ccttctaac gtctacaag gactttcga gcagcagta 
ttcaaaatt ctcggaatg caagacaac cctccagta 
ttcacaaac ggcaaagtg gccaccgtc ccatcggac 
gtcaccacc gaacttcca acaatgcaa gcgttacct 
ccggcccat gtgcaaaac cacgagccc gaaaggccc 
aaaacccag gtgatatca gtgaccacc aacaaccag 
cataattac cagtcgcct gttaaggcc ggctggccc 
cccgttttg tgggtaatt ggaggcccg gggagcaac 
aaggcggct ctgtgctcg caagcggcc aaagacacc 
aggtggact cacatcagt ctggggaag ctgctcaga 
gccgcagct gaacccccg gatccgaga cacaacagc 
gaaacggcc aaaattaga gagagcata agtgcagga 
gagctggtg cctttgaac gtcgtgatg aagttcgtg 
gagtcgcat atggcggcc aatatggcg gcgccggga 
atcatcctt gacgggttc ccgagggac atgacccag 
gccaccgag tttgaagct aagttcaag cagaagccg 
tcgatagtc ctcctggac tgctcgaag ctccagctc 
gggcgaggg cgcctggac gacagcgtg acagctttc 
aggcgtcgt ttggagatt ttcaggcag tcgtcattg 
ccgatgctg aaaaccatg gacaatatc gggcgactg 
acgatcgtg gacggggac acggacacg gcccccgtc 
caggacgac ttcaagggt gtggtgaaa gagcacatc 
gagtacatc aagcgccag cagcaggag ccggcggcc 
gccaacggc ttcgccaac gggcacgtg cccaacgga 
gaggccact ctccaggac ctggaggcc gaacccatc 
gagaccatc agcaagcac gtgggcaac ggcgtcgcc 
cactcgctg gccaacggg gtgcgcacc atggccaat 
gggtacacc aatgggcac atacccaac gggtacgcc 
cgcgatttg ccgcagtac accagcttc gatgggcct 
gataataga cagatgtac aacgaagtt aactacatg 
gatggacac atttag
    mRNA sequence
    • >TC013739 RA
      cgcgaagaa ctttcgttg acggttcat tcaacattt 
tgctgaaaa ctgatttag cggtgatgg caaagtgaa 
ctgaaacca tgtagtgac aaaaatgaa tttattccc 
tcgtaaaga ctcaaaaga gtggattaa aaacgatct 
cgcgagctc catgaataa atcgcaaac gtttacgcg 
gcatccgcg tcattctgg cgacttact aaaaacata 
ccaaactat tttttcgag gatataata tgggaatct 
gcttggata cagagcaaa gtgatggtt ctcaagctt 
tcgaagaag ggcaggaca cttgggtgc agaacacgc 
cacgaagag ccgaaccgg gctccacaa caccaccaa 
ccggaaaac taccaatgc aaaacgaca cagacgtgc 
agtttgaat cgccaaaag tgccggtta tatttgttc 
tcgggggcc ctggcagcg gcaaggtga ctcactgtg 
acagcctta tgcaagaaa agaaaggca taacacaca 
tcaacatga ctgacctcc tccaacaat acgccatcg 
gcaacgata tgcaagatt tcgggctgt tgtcgagta 
agaccgtca ccgaagtgc tcatgcttg agatgaaga 
tggcgccaa cggccaaga cgtatctcg tctcggggt 
ttcccagga acatgaggg acgtcgtcg agtattcgg 
aaaagatcc agatgttaa gcggtgcga ttatgatct 
cttggcggc aaaaagttc tggaacgac aaatcgatt 
acggtgcca aattaggtc aagtggttt tatcattgg 
ccagaatgg aactcaaca atttttaca agaatgtga 
tgccagtag ccgactatt tcgaccaaa gcaatatgc 
taatatcga taaacggcg aacgccatc cttctaacg 
tctacaagg actttcgag cagcagtat tcaaaattc 
tcggaatgc aagacaacc ctccagtat tcacaaacg 
gcaaagtgg ccaccgtcc catcggacg tcaccaccg 
aacttccaa caatgcaag cgttacctc cggcccatg 
tgcaaaacc acgagcccg aaaggccca aaacccagg 
tgatatcag tgaccacca acaaccagc ataattacc 
agtcgcctg ttaaggccg gctggcccc ccgttttgt 
gggtaattg gaggcccgg ggagcaaca aggcggctc 
tgtgctcgc aagcggcca aagacacca ggtggactc 
acatcagtc tggggaagc tgctcagag ccgcagctg 
aacccccgg atccgagac acaacagcg aaacggcca 
aaattagag agagcataa gtgcaggag agctggtgc 
ctttgaacg tcgtgatga agttcgtgg agtcgcata 
tggcggcca atatggcgg cgccgggaa tcatccttg 
acgggttcc cgagggaca tgacccagg ccaccgagt 
ttgaagcta agttcaagc agaagccgt cgatagtcc 
tcctggact gctcgaagc tccagctcg ggcgagggc 
gcctggacg acagcgtga cagctttca ggcgtcgtt 
tggagattt tcaggcagt cgtcattgc cgatgctga 
aaaccatgg acaatatcg ggcgactga cgatcgtgg 
acggggaca cggacacgg cccccgtcc aggacgact 
tcaagggtg tggtgaaag agcacatcg agtacatca 
agcgccagc agcaggagc cggcggccg ccaacggct 
tcgccaacg ggcacgtgc ccaacggag aggccactc 
tccaggacc tggaggccg aacccatcg agaccatca 
gcaagcacg tgggcaacg gcgtcgccc actcgctgg 
ccaacgggg tgcgcacca tggccaatg ggtacacca 
atgggcaca tacccaacg ggtacgccc gcgatttgc 
cgcagtaca ccagcttcg atgggcctg ataatagac 
agatgtaca acgaagtta actacatgg atggacaca 
tttagtgat ctgatttgt gataatacg aggacatgt 
tacctacaa gtattatgt gggtagttt ttagttgta 
gtttaggtg tgctcaagt gtgccttat gacgggaag 
gttcaacga ttgatggaa ggttttatg atgggatcc 
aacagtatt ctctagatt tttaagcag caattttgt 
atagtaatt aaacacaaa ttatttaat aatgttttt 
actgaaaag accgctggt cggttctat tataagtga 
ataagtggc aaacatttg agattctat aagatagta 
gcacgaaaa tcacagcac gaaataaac acaaaaata 
ttttcaagt gtcgagtag cattttcat cctgtcgat 
gtttaaatt atttgcatt acttaacta attgtattt 
tttcgaaaa gtaaagata ggtgattat gctacatat 
agactgaca aatattttt tgtaaaata aggatttgt 
gattacctc aaaattata attataaaa cctgtttct 
taatcaaag atccaaaaa tattactgg attttaatt 
tatttactt tatactgaa tcgattttt cgctgtcag 
gaaaaaaca acatatcaa taagtttgg ttctttata 
aaagaaaat caaaattaa agtacctat atttgt

    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