Status
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Gene information
General information
TC002099 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.

NW_015452015.1: 4..2870
Sequence information
Transcripts / Proteins (2) 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
    		TC002099
    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
    {{ blurEvidenceResult }}
    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_03304

    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: 3 (3 dpi)
    Days post injection

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

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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): less than 30%
    -
    larva partially dorsalnot closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva partially constricted - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax segment partially randomnot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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: % (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
    • >TC002099 RA
      MQLTVSSGG LKATTKDHG LTEYWAHRL TTCSAPAQF 
PRLFCWVYR HEGRRLRHE LRCHAVLCP SAAIARLIE 
TQLKQALAL ALAEFKRDK ISRQNARLS LVNSVYDNP 
TIPRRKILL STGSHNYKP PLERSKSAP KLTSIEEII 
EEEEETPEP SKNVYKKIL RHYDSTSAL LDKRKTFVR 
RLQVPDVRE DDKELTLDE KSDMILEEL VQNSLRNDL 
LESCERAWF NALGEKPDL VPPDSDEGS LSSGCESAS 
TVTSDLDQP VFPAISEED EPKKTDLDF KVGGCVLAR 
VRSFERVNA YCGLKILGN EEVSLVPVG ESQADFSSL 
KVFKRRSLD TRELCEEEG ENESACSDE SGYEEEEVN 
SSVANIVLV
    • >TC002099 RB
      MILEELVQN SLRNDLLES CERAWFNAL GEKPDLVPP 
DSDEGSLSS GCESASTVT SDLDQPVFP AISEEDEPK 
KTDLDFKVG GCVLARVRS FERVNAYCG LKILGNEEV 
SLVPVGESQ ADFSSLKVF KRRSLDTRE LCEEEGENE 
SACSDESGY EEEEVNSSV ANIVLV
    CDS sequence
    • >TC002099 RA
      atgcagctc actgtgagc agcggcggc ctcaaagcc 
accaccaaa gaccacggc ctcaccgaa tactgggcc 
caccgtctc accacctgc tccgccccc gcccaattc 
ccgcgcctc ttctgctgg gtgtaccgc cacgagggc 
cgccgcctc cggcacgaa ctccgctgc cacgcggtg 
ctctgcccc tcggccgcc atcgcccgc ctcatcgaa 
acccagctc aagcaagcc ctcgccctg gccttggcc 
gagttcaaa cgcgacaaa atctcgcgg caaaacgca 
cgactctcc cttgttaac tcggtctac gacaacccc 
accatcccc aggaggaaa atcctgcta agtacgggc 
tcccacaac tacaagccg cccttggag cggtcgaaa 
tccgccccg aagttaacc agcatcgag gaaattatc 
gaggaggag gaagagact cctgaaccg agcaaaaac 
gtgtacaag aagattctg cggcattat gacagcacg 
agtgctttg ctcgacaag cgaaaaact ttcgtccgg 
aggctgcaa gtacctgac gtccgtgag gacgacaaa 
gagctgact cttgacgag aaaagcgac atgattttg 
gaggagctg gtgcagaat tcgctccgg aacgacctt 
ttggagtcg tgtgaaagg gcctggttt aacgctttg 
ggggagaag cccgacctg gtgccccct gatagtgac 
gaggggtcg ttgtcaagc gggtgtgag tcggcgtcc 
acggtcacc tctgacctg gaccagccc gttttcccg 
gccatctcc gaggaggac gagccgaaa aagactgat 
ttggacttc aaagttggg ggctgcgtg ctggcccgc 
gttcgcagc tttgagagg gttaacgcg tattgcggt 
ttgaagatt ctggggaat gaggaggtg tcgctggtg 
ccggtgggg gagagccag gccgatttc agttccttg 
aaggtgttc aagcggagg agtttggac acgagggag 
ttgtgtgag gaggagggc gagaatgag agtgcgtgt 
agtgacgag agcgggtac gaggaggag gaggtgaat 
agttcggtc gctaatatt gtgctagtt tag
    • >TC002099 RB
      atgattttg gaggagctg gtgcagaat tcgctccgg 
aacgacctt ttggagtcg tgtgaaagg gcctggttt 
aacgctttg ggggagaag cccgacctg gtgccccct 
gatagtgac gaggggtcg ttgtcaagc gggtgtgag 
tcggcgtcc acggtcacc tctgacctg gaccagccc 
gttttcccg gccatctcc gaggaggac gagccgaaa 
aagactgat ttggacttc aaagttggg ggctgcgtg 
ctggcccgc gttcgcagc tttgagagg gttaacgcg 
tattgcggt ttgaagatt ctggggaat gaggaggtg 
tcgctggtg ccggtgggg gagagccag gccgatttc 
agttccttg aaggtgttc aagcggagg agtttggac 
acgagggag ttgtgtgag gaggagggc gagaatgag 
agtgcgtgt agtgacgag agcgggtac gaggaggag 
gaggtgaat agttcggtc gctaatatt gtgctagtt 
tag
    mRNA sequence
    • >TC002099 RA
      agtgacttt aaaatgcaa attctacaa aagccagca 
ttttagaat aagttgtat gtattaaat ttgacagaa 
aaattttca aaatctgtt gtcactgtc aaaaacata 
cgctggcag gacctgtca atggcaatg gcactccgc 
aataaaact agtaccgca tcaaatttc acttattcc 
ctcggattt tcctttaaa tattttttt tcacaaggt 
ttcaattgt caaaatgta gaataaacc tgtttaaat 
gtgttgtta ttggaggaa aattgtgaa tattcctta 
aattaatca taaagaaat tcactaata caaaaaata 
tttacgaat acacaaaca aaaacgacc ataagcacg 
ttgaaaacg gctttaaac gaaaataat tgaaggttt 
tagtggatt aaggaaatg aaaatttgg ttctttttg 
gcaaagtag aggatggaa cggtattta aaaaaacaa 
ttattgttg cgtttacaa attcatgac gaaaactgg 
gtgctttac attagagat agttacaaa aaaaaattg 
taaaattgg taaaaaaaa attatctct ccgtgcata 
gaatccact tgttgcttc agttgcaaa cctttatta 
aaaaaaata cagcacaaa atttcagtg tttccttta 
aatttttaa attttcaaa tgttcaagt gcttaagtt 
taaaccgtt aataataat caactaaca gaatatgtg 
cagttaccg gaaggaaat tgtgaatgt ttcttaaaa 
tattgtgta atagaaagt agataagag ttttatgca 
ctaaacgac acataatag gtgattcta agtttttaa 
tactgattt gaggatatt agagaagtc cattctgtc 
gctggaaaa tctacgcca caatttatt tcattgttg 
cgttttcga attcttgac aaaaactta atttaaact 
tacactccc gcttttttc ccgttgaaa cgtcagcga 
aaaagtaac aaatagaga ctaatcccc cgttcacag 
aatccactt gttgctttt attcctcct ctcattctc 
cgctaatta cctcggcac gttctcact cgttccgtt 
ttccaggtg acggctgtg tggaaaagc cgttagcga 
ccttatggc gtaactaca cgcaatcgt cccgtcccg 
acgtccgca tgcagctca ctgtgagca gcggcggcc 
tcaaagcca ccaccaaag accacggcc tcaccgaat 
actgggccc accgtctca ccacctgct ccgcccccg 
cccaattcc cgcgcctct tctgctggg tgtaccgcc 
acgagggcc gccgcctcc ggcacgaac tccgctgcc 
acgcggtgc tctgcccct cggccgcca tcgcccgcc 
tcatcgaaa cccagctca agcaagccc tcgccctgg 
ccttggccg agttcaaac gcgacaaaa tctcgcggc 
aaaacgcac gactctccc ttgttaact cggtctacg 
acaacccca ccatcccca ggaggaaaa tcctgctaa 
gtacgggct cccacaact acaagccgc ccttggagc 
ggtcgaaat ccgccccga agttaacca gcatcgagg 
aaattatcg aggaggagg aagagactc ctgaaccga 
gcaaaaacg tgtacaaga agattctgc ggcattatg 
acagcacga gtgctttgc tcgacaagc gaaaaactt 
tcgtccgga ggctgcaag tacctgacg tccgtgagg 
acgacaaag agctgactc ttgacgaga aaagcgaca 
tgattttgg aggagctgg tgcagaatt cgctccgga 
acgaccttt tggagtcgt gtgaaaggg cctggttta 
acgctttgg gggagaagc ccgacctgg tgccccctg 
atagtgacg aggggtcgt tgtcaagcg ggtgtgagt 
cggcgtcca cggtcacct ctgacctgg accagcccg 
ttttcccgg ccatctccg aggaggacg agccgaaaa 
agactgatt tggacttca aagttgggg gctgcgtgc 
tggcccgcg ttcgcagct ttgagaggg ttaacgcgt 
attgcggtt tgaagattc tggggaatg aggaggtgt 
cgctggtgc cggtggggg agagccagg ccgatttca 
gttccttga aggtgttca agcggagga gtttggaca 
cgagggagt tgtgtgagg aggagggcg agaatgaga 
gtgcgtgta gtgacgaga gcgggtacg aggaggagg 
aggtgaata gttcggtcg ctaatattg tgctagttt 
aggggtggg gttggggga gttgtgact attgtagtg 
tatatattg tatatagtt tcacagaat agaatgtga 
tgttttgtt gtaatgtgt taccatttg tggtgtaga 
tcgggtgca catttctta ttgtacctc acttcagac 
aaagtattt atattgtta tttgacaat gatattgtg 
tattaaata aatatttga ggaaaat
    • >TC002099 RB
      tcccgcgcc tcttctgct gggtgtacc gccacgagg 
gccgccgcc tccggcacg aactccgct gccacgcgg 
tgctctgcc cctcggccg ccatcgccc gcctcatcg 
aaacccagc tcaagcaag ccctcgccc tggccttgg 
ccgagttca aacgcgaca aaatctcgc ggcaaaacg 
cacgactct cccttgtta actcggtct acgacaacc 
ccaccatcc ccaggagga aaatcctgc taagtacgg 
gctcccaca actacaagc cgcccttgg agcggtcga 
aatccgccc cgaagttaa ccagcatcg aggaaatta 
tcgaggagg aggaagaga ctcctgaac cgagcaaaa 
acgtgtaca agaagattc tgcggcatt atgacagca 
cgagtgctt tgctcgaca agcgaaaaa ctttcgtcc 
ggaggctgc aagtacctg acgtccgtg aggacgaca 
aagagctga ctcttgacg agaaaagcg acatgattt 
tggaggagc tggtgcaga attcgctcc ggaacgacc 
ttttggagt cgtgtgaaa gggcctggt ttaacgctt 
tgggggaga agcccgacc tggtgcccc ctgatagtg 
acgaggggt cgttgtcaa gcgggtgtg agtcggcgt 
ccacggtca cctctgacc tggaccagc ccgttttcc 
cggccatct ccgaggagg acgagccga aaaagactg 
atttggact tcaaagttg ggggctgcg tgctggccc 
gcgttcgca gctttgaga gggttaacg cgtattgcg 
gtttgaaga ttctgggga atgaggagg tgtcgctgg 
tgccggtgg gggagagcc aggccgatt tcagttcct 
tgaaggtgt tcaagcgga ggagtttgg acacgaggg 
agttgtgtg aggaggagg gcgagaatg agagtgcgt 
gtagtgacg agagcgggt acgaggagg aggaggtga 
atagttcgg tcgctaata ttgtgctag tttaggggt 
ggggttggg ggagttgtg actattgta gtgtatata 
ttgtatata gtttcacag aatagaatg tgatgtttt 
gttgtaatg tgttaccat ttgtggtgt agatcgggt 
gcacatttc ttattgtac ctcacttca gacaaagta 
tttatattg ttatttgac aatgatatt gtgtattaa 
ataaatatt tgaggaaaa t

    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