Status
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Gene information
General information
TC003262 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_007418.3: 518710..521746
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
    		TC003262
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03531

    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: 2 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     gnathal appendages partiallynot present - Penetrance (percentage of animals/eggs on slide): less than 30%
    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs pretarsus bent - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 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: 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
    • >TC003262 RA
      MVGMANMDE HERKVVMEF CHLLEKSKQ LFNGLRDLP 
QYGHKQWQA YFGRTFDIY TKLWKFQQQ HRQILDTKY 
GLKRWQIGE IASKIGQLY YHYYLRTSE TNYLNEAYS 
FYAAIRGRA YYSRAAKED RSELMVKKL RYYARFIVV 
CLLLRRMKL VRELIVELD RHIADYTST YEPDDQIEW 
SLVLDEIKN FITADSIVT VLHADTNPI VLSHRLSPL 
TTPPVEKSQ YMNLTLQEI LIVGSASEQ VKFSELTMD 
MFRMIQTLE REPQEDYNH IYDASPAPG RVPYGVPGQ 
KGYIENGER PLRRENPHK YLLYKPTLS QVLVFLASG 
FKELPANGA LLLYLSSDG CFSTTKHPE DMGYDLGGV 
LTSSRRDGE HKKQKEAHC LYPGDLYPF TRRPLFVVV 
DSDNSFVFQ HIPRYFGQP LVTLMSPQD TPPAFQDQQ 
HNGSLFTLF LHSPLTAFC YCCNLTSIP IHHWERCQS 
FVDRFVTEA SRLFTRSRV DSSYLQFFG DDFLRLLLL 
RYVFCDVVL HLHRAFRSR QYRPRCQPP LPEAELLEH 
PSLQHLVLD LAAHLEVRT HFMDNHEID
    CDS sequence
    • >TC003262 RA
      atggtcggt atggcaaat atggacgag cacgagcga 
aaagtagtg atggagttt tgtcatcta ttggaaaag 
tccaaacaa ctgttcaac gggttacgg gatttgcca 
caatacggc cacaaacaa tggcaagct tatttcgga 
cgaactttc gacatctac acaaaatta tggaaattt 
caacagcag caccgtcaa attttagat acaaagtat 
gggcttaaa cgatggcaa atcggagag attgcatct 
aaaattgga caactttat taccactat tatttgagg 
accagcgag actaattat ttgaacgaa gcttactca 
ttctatgct gctatcaga ggacgtgct tactactca 
agagccgca aaagaagac aggtcagaa ttaatggtg 
aagaaattg agatattac gcacgtttt atcgtagtt 
tgcctttta ttacgtcga atgaaacta gtgagagaa 
cttatagta gaattagat cgacacatt gcagattac 
acgagtacc tacgaacct gacgatcag attgaatgg 
agtttggtt ttagatgaa ataaaaaat ttcatcacc 
gctgattcg atagtcact gtcttgcat gcagacaca 
aatcccatc gttttatcc catcgatta agccctctg 
acaacccct ccggtggaa aaatcccaa tacatgaac 
ctaaccctt caagaaatc ctcatcgta ggcagcgcc 
tctgaacaa gtcaagttt tccgaatta accatggac 
atgttccgt atgattcaa acccttgaa cgcgaacct 
caggaagat tacaatcac atctacgac gcgtctcca 
gctccaggt cgtgtccct tatggcgtt cccggccaa 
aagggctac attgagaac ggcgaaaga cctctacga 
cgcgaaaat ccacacaag taccttctg tacaaaccg 
acacttagc caagttctt gtgtttttg gctagcggc 
ttcaaggag ttgccagca aatggagca ctgttgttg 
tatttgtcg tccgatggg tgtttttcc accaccaag 
catccggag gatatgggt tatgatctt gggggcgtt 
ttgacgagc agtcggaga gatggagag cacaagaaa 
cagaaggaa gctcactgc ctttatcct ggtgatttg 
tatccgttc accaggcga ccgctgttt gttgtcgtt 
gattcggac aatagtttt gtttttcaa cacattccg 
aggtatttt ggacagccg ctggttacg ctaatgtcg 
ccgcaagac acaccaccg gccttccaa gatcaacaa 
cacaacggt tctttattc actctgttc ctgcactcg 
cctctgacc gcattctgt tactgttgc aacttgaca 
agcattccg atccaccac tgggagcgt tgtcagagt 
ttcgtcgat cgcttcgtc accgaagcc tcccgcctt 
ttcacacgt tcaagagtc gattcgtca tatcttcaa 
ttcttcggt gacgatttc ctgcgcctc ctcctcctc 
cgttacgta ttctgtgac gtggtgctg cacctccac 
cgtgcgttt cgcagccga cagtatcgc ccccgttgc 
cagccaccg ctcccagaa gccgaactc ctagagcac 
ccctccctc cagcacctg gtgctcgat ctggctgca 
catctcgaa gtgcgcacc cattttatg gacaaccac 
gaaatcgac tga
    mRNA sequence
    • >TC003262 RA
      gatgtctgc tgttcgatt tttcgacga cgaccgtcg 
ttcttttcc accagtgcg taatccggt caaaactaa 
aagcatgcc cctctgaaa cgaagaaat catggtcgg 
tatggcaaa tatggacga gcacgagcg aaaagtagt 
gatggagtt ttgtcatct attggaaaa gtccaaaca 
actgttcaa cgggttacg ggatttgcc acaatacgg 
ccacaaaca atggcaagc ttatttcgg acgaacttt 
cgacatcta cacaaaatt atggaaatt tcaacagca 
gcaccgtca aattttaga tacaaagta tgggcttaa 
acgatggca aatcggaga gattgcatc taaaattgg 
acaacttta ttaccacta ttatttgag gaccagcga 
gactaatta tttgaacga agcttactc attctatgc 
tgctatcag aggacgtgc ttactactc aagagccgc 
aaaagaaga caggtcaga attaatggt gaagaaatt 
gagatatta cgcacgttt tatcgtagt ttgcctttt 
attacgtcg aatgaaact agtgagaga acttatagt 
agaattaga tcgacacat tgcagatta cacgagtac 
ctacgaacc tgacgatca gattgaatg gagtttggt 
tttagatga aataaaaaa tttcatcac cgctgattc 
gatagtcac tgtcttgca tgcagacac aaatcccat 
cgttttatc ccatcgatt aagccctct gacaacccc 
tccggtgga aaaatccca atacatgaa cctaaccct 
tcaagaaat cctcatcgt aggcagcgc ctctgaaca 
agtcaagtt ttccgaatt aaccatgga catgttccg 
tatgattca aacccttga acgcgaacc tcaggaaga 
ttacaatca catctacga cgcgtctcc agctccagg 
tcgtgtccc ttatggcgt tcccggcca aaagggcta 
cattgagaa cggcgaaag acctctacg acgcgaaaa 
tccacacaa gtaccttct gtacaaacc gacacttag 
ccaagttct tgtgttttt ggctagcgg cttcaagga 
gttgccagc aaatggagc actgttgtt gtatttgtc 
gtccgatgg gtgtttttc caccaccaa gcatccgga 
ggatatggg ttatgatct tgggggcgt tttgacgag 
cagtcggag agatggaga gcacaagaa acagaagga 
agctcactg cctttatcc tggtgattt gtatccgtt 
caccaggcg accgctgtt tgttgtcgt tgattcgga 
caatagttt tgtttttca acacattcc gaggtattt 
tggacagcc gctggttac gctaatgtc gccgcaaga 
cacaccacc ggccttcca agatcaaca acacaacgg 
ttctttatt cactctgtt cctgcactc gcctctgac 
cgcattctg ttactgttg caacttgac aagcattcc 
gatccacca ctgggagcg ttgtcagag tttcgtcga 
tcgcttcgt caccgaagc ctcccgcct tttcacacg 
ttcaagagt cgattcgtc atatcttca attcttcgg 
tgacgattt cctgcgcct cctcctcct ccgttacgt 
attctgtga cgtggtgct gcacctcca ccgtgcgtt 
tcgcagccg acagtatcg cccccgttg ccagccacc 
gctcccaga agccgaact cctagagca cccctccct 
ccagcacct ggtgctcga tctggctgc acatctcga 
agtgcgcac ccattttat ggacaacca cgaaatcga 
ctgatccag ggcttcctc ctcatggcc gtgcgtggg 
gtttagtgc cacttcgag gaggcacac ccatgagga 
tgggccccg tggccccct tcttctgct gatcgcctt 
cgcagccgt gtttttggt cacaaacgc gcacttctc 
ctcgtggat gatggaagc tttaccatt tttttggac 
tcttttcga attcgcgac atgtaattt tcggccagt 
tttggcgac ggctctgtg gctgaaatt gtcgtattt 
ttggacacc ttcttcaac gttcaagtt tagttcatc 
ggtgataat atagctcaa agtcgagca cagcgtctt 
tcaatatat ccgttcact aggcgggcc cttcggtac 
gaggctcga cggttggac cttcaactg cgttttaac 
attgccact tttacccaa cttataata ttgtataaa 
attagtcct ctattgaag ccgtgacca acagtgatt 
aatacgcct ttcgtgccg tgtacgata cgcattact 
tattataac taaatttta attactatt gaatgcatg 
actagatcc ttagaacag gtaccgatc atcacatag 
tcaattctt tcacacaca aaaattgta ccaccagta 
cggacctga acaactcac tttttctca tccaaaaca 
agacaaaac caccaatat aaaaaattt acgttacaa 
aataccaaa atttcgtta acacagttt agagaaata 
taaaattta gaaaaaaaa tcctaaaga gacaaaaag 
cgacgtcga taatataat tttacttga attaaatca 
ccaattttg ac

    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