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Gene information
General information
TC012819 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: 15984101..15987771
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
    		TC012819
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05326

    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)

    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larval musculature potentially degenerated - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     head partially not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    antenna partially not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    antenna irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    antenna shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012819 RA
      MLILLLVPL LTGASATSN VTIDEIPET YLNLSAGNS 
LWTALLKNC RQPTMACVE KTVYEYLKR TVETREDLH 
VVPFVKMKR NQVDYDRIS GPEIGDWDE EEPESSLEA 
MSRDLHGKS VKFLMTHDM EVQLPETMF QGSVLKISP 
RAFEGNGAL VKLEIQPKE VQGIAEGRL FKKLKNFIS 
EKLIYALLA ILLVIKLLA AKFMFFMPM AVGAVTAKK 
LLIKVLLFL FPALHHFFK LCAYVPHGT KYHHHKHHI 
SHIHHVAPH KHHHHGHHH PHPHDSVEV IHPHAEGPP 
VVEGPWHHG GASLHHSIE IEEPHKTYY KPHEQELEY 
YSGGPHLSH HFINHRQDS QEDNEVQPA QGHRNKKPS 
NRPLTPSEI EAMVLKAEK EAKLKVRLQ QERHRIQEE 
NARLQEQLK LALKIQEKL KQQAAVVKA KLPVPPSTN 
LQTPASEQK QVYSAKVKQ PEVVQPETK KEPTPFETA 
LHQAAAITY DPFYSPILE KIDKILVGL GFNEEPCRE 
RLICSMYKN PVKFSPHSN LLSAELSRD SKELQKPTT 
TNAAVIRFY RYVQAARDG QDKRECLRL YPSCSINTE 
Q
    CDS sequence
    • >TC012819 RA
      atgttaatt ttgctattg gtgccactt ttgaccgga 
gcgagcgcg acctccaac gtgaccatc gacgaaata 
ccagagact tacctcaat ctatcagca ggaaattcc 
ttatggacg gcactgctg aagaactgc cgccagccg 
acgatggcc tgcgtcgaa aaaaccgtc tacgagtac 
ttgaaacgt acggtagag actcgggag gatttgcac 
gtggtgcca tttgttaaa atgaagcgg aaccaagtg 
gattacgac cggatttcc gggccggaa atcggagac 
tgggatgag gaggaaccc gagagcagt ctggaagca 
atgtccaga gatttgcat gggaaaagt gtcaagttt 
ttgatgacc catgacatg gaagtgcaa ttaccagaa 
acgatgttt caaggcagt gttttgaaa atctcgccg 
agggctttt gagggaaat ggggcttta gtcaagctg 
gaaattcaa ccgaaagaa gtacaaggg attgcagaa 
ggaagactc ttcaagaag ttgaaaaac ttcatcagc 
gagaaactc atctatgcc cttttggcg atactttta 
gtcattaaa cttctcgcg gccaagttt atgtttttt 
atgccaatg gccgtgggt gcagtaacg gcaaagaaa 
cttttaatc aaagtacta cttttcctc ttccctgca 
ttgcatcac ttcttcaaa ttgtgcgct tacgtacca 
catggtact aaataccat caccacaag caccacatt 
tcccatatc catcatgtt gcgccccat aagcaccat 
catcatggg caccatcac ccacaccct catgactct 
gtcgaggtt atccaccca catgccgaa gggcctccg 
gtggttgaa gggccctgg caccatgga ggcgcctcc 
ttgcaccat tccatcgaa atcgaagag ccccacaag 
acctactac aaaccccac gagcaagaa ttggagtac 
tactctgga ggaccacac ttatctcac cattttatc 
aaccatcgg caagacagc caagaagat aacgaagtg 
caaccggct caaggccac cgcaataag aaaccatcc 
aaccgtcca ttaacaccc agcgaaatc gaagcaatg 
gtactaaaa gccgaaaaa gaagccaaa ctgaaagtt 
cgcctccag caggaacga caccgcatc caagaggaa 
aacgcacgc ttgcaggaa caattaaaa ctggccttg 
aaaatacaa gaaaaactc aaacaacag gcggccgtg 
gtcaaggca aaattaccg gtaccgccg agtactaat 
ctacaaacg ccagcaagc gagcaaaaa caagtctat 
tcggctaaa gtgaaacag ccggaagtt gtacaaccg 
gaaacgaaa aaagaaccg acgccgttt gaaacggct 
ctacaccaa gccgctgcg ataacgtac gacccgttc 
tacagcccc attttagag aaaattgat aagatcttg 
gtcggcttg ggcttcaac gaggagccg tgcagggaa 
aggctcatt tgtagcatg tacaaaaat ccggtcaag 
ttcagtccg cacagtaat ctcctatca gcggaatta 
agcagagat tccaaagaa ctgcaaaag cccacaaca 
accaacgct gccgtgatc cgattctat cgctacgtg 
caagcagcc agagacggc caagacaaa cgtgaatgc 
ctaagactt tatccatca tgttccata aatacagaa 
caataa
    mRNA sequence
    • >TC012819 RA
      ttgccggcc agcagagaa cgtcactat gccctgatt 
gtcatggtg gtccagttt cggtgtgtg ctaggtgga 
ctttcggga tgtgatagt gtttaattg tggacaaaa 
actttaaat ccaaagaca tgttaattt tgctattgg 
tgccacttt tgaccggag cgagcgcga cctccaacg 
tgaccatcg acgaaatac cagagactt acctcaatc 
tatcagcag gaaattcct tatggacgg cactgctga 
agaactgcc gccagccga cgatggcct gcgtcgaaa 
aaaccgtct acgagtact tgaaacgta cggtagaga 
ctcgggagg atttgcacg tggtgccat ttgttaaaa 
tgaagcgga accaagtgg attacgacc ggatttccg 
ggccggaaa tcggagact gggatgagg aggaacccg 
agagcagtc tggaagcaa tgtccagag atttgcatg 
ggaaaagtg tcaagtttt tgatgaccc atgacatgg 
aagtgcaat taccagaaa cgatgtttc aaggcagtg 
ttttgaaaa tctcgccga gggcttttg agggaaatg 
gggctttag tcaagctgg aaattcaac cgaaagaag 
tacaaggga ttgcagaag gaagactct tcaagaagt 
tgaaaaact tcatcagcg agaaactca tctatgccc 
ttttggcga tacttttag tcattaaac ttctcgcgg 
ccaagttta tgtttttta tgccaatgg ccgtgggtg 
cagtaacgg caaagaaac ttttaatca aagtactac 
ttttcctct tccctgcat tgcatcact tcttcaaat 
tgtgcgctt acgtaccac atggtacta aataccatc 
accacaagc accacattt cccatatcc atcatgttg 
cgccccata agcaccatc atcatgggc accatcacc 
cacaccctc atgactctg tcgaggtta tccacccac 
atgccgaag ggcctccgg tggttgaag ggccctggc 
accatggag gcgcctcct tgcaccatt ccatcgaaa 
tcgaagagc cccacaaga cctactaca aaccccacg 
agcaagaat tggagtact actctggag gaccacact 
tatctcacc attttatca accatcggc aagacagcc 
aagaagata acgaagtgc aaccggctc aaggccacc 
gcaataaga aaccatcca accgtccat taacaccca 
gcgaaatcg aagcaatgg tactaaaag ccgaaaaag 
aagccaaac tgaaagttc gcctccagc aggaacgac 
accgcatcc aagaggaaa acgcacgct tgcaggaac 
aattaaaac tggccttga aaatacaag aaaaactca 
aacaacagg cggccgtgg tcaaggcaa aattaccgg 
taccgccga gtactaatc tacaaacgc cagcaagcg 
agcaaaaac aagtctatt cggctaaag tgaaacagc 
cggaagttg tacaaccgg aaacgaaaa aagaaccga 
cgccgtttg aaacggctc tacaccaag ccgctgcga 
taacgtacg acccgttct acagcccca ttttagaga 
aaattgata agatcttgg tcggcttgg gcttcaacg 
aggagccgt gcagggaaa ggctcattt gtagcatgt 
acaaaaatc cggtcaagt tcagtccgc acagtaatc 
tcctatcag cggaattaa gcagagatt ccaaagaac 
tgcaaaagc ccacaacaa ccaacgctg ccgtgatcc 
gattctatc gctacgtgc aagcagcca gagacggcc 
aagacaaac gtgaatgcc taagacttt atccatcat 
gttccataa atacagaac aataagtgc agtgcagtg 
taaataaag ctcagtcat tttgtaaat aattagttg 
ctttaagaa atcattatg ttattgctc aatagtgac 
gcttttgta aaaatatta ataacaaaa gcatgagta 
aatctagtg tatgctgct tagtctaat ttctaagga 
aaactctgg ctagtcaga gtcggaatt gtcgagtac 
ctaaattgt tttttactt ttttaagcg ctagagact 
gtgaatggt tgatcgatc gattgatag taactttat 
ttatttatt tatgtaatt tatttattt aattattta 
ttgccaact gtaaatttg taaagttat ttataataa 
atacatgac tacagg

    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