Status
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Gene information
General information
TC000929 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_007417.3: 8611917..8617111
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
    		TC000929
    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
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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_00187

    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)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 4

    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): less than 30%
    embryo/egg - Penetrance (percentage of animals/eggs on slide): less than 30%
    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    Adult morphology
    elytra shape rounded - Number of animals showing the phenotype: 6 (22 dpi)
    Days post injection


    hindwing potentially folding irregular - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection


    Fertility
    egg production: number no/almost no eggs -
    ovary size decreased - Number of animals showing the phenotype: 1

    vitellarium not present - Number of animals showing the phenotype: 1
    tropharium size decreased - Number of animals showing the phenotype: 1
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000929 RA
      MEAPPSPQS VGREFVRQY YTLLNKAPA HLHRFYNQN 
SSFIHGGLD PPNRETSPV IGQKQIHQK IQQLNFHDC 
HAKITQVDS QATLGSGVV VQVTGELSN AGQPMRRFT 
QTFVLAAQS PKKYYVHND IFRYQDEII SDEECEPEN 
RSEPEDETS QECPVLNDV QQMNQAPMN YYNPTNIAP 
VPHHQPPHV LAPPAVPQV NGAVHPDDI NVMPGPVPH 
VNAAGQGQV LPTPITTIQ PSTIVPPLN AAAPVEEAQ 
NEVQNEEPQ EINYNEGNE QDNEQDLNQ EPVASNEPK 
TYANLLKSG NSVPFNNPP LGTSPAQQP RSVSPPNMG 
PRGEQGGLG NRNSMNRGP RVNQQRVQK QDSGRGAPG 
RPSFNEEDD RKRPQGNSF GDQNQLFLG NLPHNATED 
ELREIFSEF GSILDLRIH TKPANKVTL PNGRAPPNY 
GFITYETQS GVQNCLAAK PIYYPKDDK NGTQLNVEE 
KKTKDRQSY GSGRPSSND NRSRDSGPR RSGPGLGGA 
NRNNATGGS QSGIIPNRT NNYNRGGGP PNRGPNTYN 
RR
    CDS sequence
    • >TC000929 RA
      atggaggct cccccatct ccccaaagt gtaggaagg 
gaattcgtt cgacaatac tacactttg ctgaacaag 
gcccctgcc catctacac cgattttac aaccaaaac 
tcctctttc atccatggc ggtttggac cctccaaac 
cgggagacc agccctgtc atcggccag aaacaaatc 
caccaaaaa atccagcag ctgaatttc cacgactgt 
cacgctaag atcacccaa gtcgactcc caagccact 
ctcggcagc ggtgtcgtc gtccaggtg accggcgag 
ttatccaac gccggtcag ccgatgcgc cgtttcact 
caaaccttc gtattggcc gcccaaagt cccaaaaag 
tactacgtt cataatgac atcttcaga taccaggac 
gagatcatc tccgacgag gaatgcgaa ccggaaaac 
cgctccgaa ccggaagac gagacttcg caagagtgc 
ccggttttg aacgacgtc cagcagatg aaccaagcc 
cccatgaat tactacaac ccgactaac attgcgccg 
gtgccccac caccagccc ccgcatgtt ctagcccct 
ccggcggtg ccccaggtc aacggagcc gtgcatcct 
gacgatatc aacgtgatg cccggaccg gtgccccat 
gtcaacgcc gcgggccaa ggacaggtc cttccgaca 
cccatcacc accatccaa ccttcgacg attgtacca 
ccgttgaat gccgcggca ccggttgag gaagcccag 
aacgaagtc caaaacgag gagccgcag gaaattaat 
tacaatgaa gggaacgaa caggacaat gaacaggat 
ttgaaccaa gagccggtt gcgtctaat gaacccaaa 
acttatgcc aacttgttg aaatcgggc aatagcgta 
ccgtttaat aacccacct ttgggtact tccccggcc 
caacaacca cgatctgta tcaccgccg aatatgggg 
cctagagga gaacaagga ggcctcgga aaccgcaac 
agcatgaac cggggacct agagttaac caacaacga 
gtccagaag caagattcg ggtcgcgga gccccaggc 
cggccctct tttaacgaa gaagatgat aggaaacga 
cctcaagga aacagtttc ggcgatcaa aaccagctg 
ttcttgggc aatttgccc cacaatgcg accgaggac 
gagctgcgc gagattttc tccgagttt ggttcaatt 
ctcgacttg aggattcac acgaagccg gccaacaaa 
gtaacactt cccaacggt cgcgctcca ccaaactac 
ggtttcata acttatgag acgcaaagt ggtgtccag 
aattgctta gccgcgaag ccgatttat tacccgaag 
gatgacaag aacggcact cagttgaac gtggaggag 
aagaagacg aaggatcgt cagtcgtac gggagcggt 
cgtccgagc agcaacgat aaccgctcg cgcgactcc 
gggcctcgt cggagcggc ccgggcctg gggggagcc 
aataggaac aacgcaacg ggagggagt cagtcgggt 
ataatcccg aatcggacc aataactac aacagaggc 
gggggaccc ccgaaccga gggccgaac acttacaat 
cgtcgctaa
    mRNA sequence
    • >TC000929 RA
      aaggtgtcc aaaatcgta actaaattg gcaatttat 
gaagtttac acccgtggt tttgcggcg tttgtgcat 
ttcaatcac atttctacc gtgttaata attaaattt 
aaccgaaaa tacttcctt agctcgctt cgccgacta 
tctagagga atggtaatg gaggctccc ccatctccc 
caaagtgta ggaagggaa ttcgttcga caatactac 
actttgctg aacaaggcc cctgcccat ctacaccga 
ttttacaac caaaactcc tctttcatc catggcggt 
ttggaccct ccaaaccgg gagaccagc cctgtcatc 
ggccagaaa caaatccac caaaaaatc cagcagctg 
aatttccac gactgtcac gctaagatc acccaagtc 
gactcccaa gccactctc ggcagcggt gtcgtcgtc 
caggtgacc ggcgagtta tccaacgcc ggtcagccg 
atgcgccgt ttcactcaa accttcgta ttggccgcc 
caaagtccc aaaaagtac tacgttcat aatgacatc 
ttcagatac caggacgag atcatctcc gacgaggaa 
tgcgaaccg gaaaaccgc tccgaaccg gaagacgag 
acttcgcaa gagtgcccg gttttgaac gacgtccag 
cagatgaac caagccccc atgaattac tacaacccg 
actaacatt gcgccggtg ccccaccac cagcccccg 
catgttcta gcccctccg gcggtgccc caggtcaac 
ggagccgtg catcctgac gatatcaac gtgatgccc 
ggaccggtg ccccatgtc aacgccgcg ggccaagga 
caggtcctt ccgacaccc atcaccacc atccaacct 
tcgacgatt gtaccaccg ttgaatgcc gcggcaccg 
gttgaggaa gcccagaac gaagtccaa aacgaggag 
ccgcaggaa attaattac aatgaaggg aacgaacag 
gacaatgaa caggatttg aaccaagag ccggttgcg 
tctaatgaa cccaaaact tatgccaac ttgttgaaa 
tcgggcaat agcgtaccg tttaataac ccacctttg 
ggtacttcc ccggcccaa caaccacga tctgtatca 
ccgccgaat atggggcct agaggagaa caaggaggc 
ctcggaaac cgcaacagc atgaaccgg ggacctaga 
gttaaccaa caacgagtc cagaagcaa gattcgggt 
cgcggagcc ccaggccgg ccctctttt aacgaagaa 
gatgatagg aaacgacct caaggaaac agtttcggc 
gatcaaaac cagctgttc ttgggcaat ttgccccac 
aatgcgacc gaggacgag ctgcgcgag attttctcc 
gagtttggt tcaattctc gacttgagg attcacacg 
aagccggcc aacaaagta acacttccc aacggtcgc 
gctccacca aactacggt ttcataact tatgagacg 
caaagtggt gtccagaat tgcttagcc gcgaagccg 
atttattac ccgaaggat gacaagaac ggcactcag 
ttgaacgtg gaggagaag aagacgaag gatcgtcag 
tcgtacggg agcggtcgt ccgagcagc aacgataac 
cgctcgcgc gactccggg cctcgtcgg agcggcccg 
ggcctgggg ggagccaat aggaacaac gcaacggga 
gggagtcag tcgggtata atcccgaat cggaccaat 
aactacaac agaggcggg ggacccccg aaccgaggg 
ccgaacact tacaatcgt cgctaataa gtgaacttc 
gcgcgaacg aattgtgaa tgggacgtg tacagtgtt 
caagaacgg atcatgacg ttagtgcca atagtggtt 
cattagctg catatttac atcaaacca tttcttttt 
ttctcttgt ttaggattg ttgcgcaat gtccgaagc 
gatatccgc caatcaata ctaatagtt ctctttttc 
aagtactta ttggctgtg ttgtataat gcgattggt 
tgatgaaaa aatcggtaa cgttcggag gttgagtaa 
cgataaaaa caatgtttc gagcatagt tttatggtt 
tgaacttaa atataagca ggtcaccac gggtcgtac 
gttacaatt attttacat aacctaaca gctgtatgc 
atgttgatg ttagtagct gctaactcg taactaaat 
tttctacta gatacttat tttttattt tttaatgcc 
aaatgtaca ttatatagg gagtgtaca taaataaaa 
atttaaatt gaaaaaaat agtcttttt atgtgagct 
gatattaac ggaatcagt agaaaattt agtgtattt 
agcttctaa ggtcaccta ttcatatgg ttctaaaca 
taatttagg attttgcgc tcgtatttt cagttactc 
taagtattt atgttttta aggctcatt cggttcttt 
ctcccgaaa attatttta ttcagttgt caacaccaa 
gcgcaacgt aattactat gcacattag aaaaatttt 
actttttgc agctaacca gttttggtt tgatcaaaa 
ttttaaatc actcagccg tcatttttt gttgcgtac 
tcttaaagt gtttgtgtc cacattaag ttaaagtta 
catgtgaat aagtggagg gtgtaatcc ccattttat 
ttaaggtag catgtgaaa gtgttttgt taattttta 
taaatttgt ctggtgaaa aagtggaat gttatttac 
aggcttagt ttcactttt ttttattcc ctaaagttt 
tgttacagt atttgttcc ttttctcct gtgataatc 
acatttcct ctcaaaagt atactcgac acagtttta 
accaaagtt cttccttcg ctaaactaa gacttgtgc 
aggttccac tagtcacaa atctacttt caggatctt 
ttcagtttg tcgttcctg taatattgt caacttgtt 
attagtaac attaaagga aat

    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