Status
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Gene information
General information
TC003706 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: 13217003..13221027
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
    		TC003706
    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
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    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_00603

    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: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    Fertility
    tropharium structure fragmented - Number of animals showing the phenotype: 4
    mature egg not present - Number of animals showing the phenotype: 4
    egg chamber sometimes fused - Number of animals showing the phenotype: 4

    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)

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003706 RA
      MSFSSDEVN FLVYRYLQE SGFQHSAYT FGIESHISR 
SNINGALVP PAALLSILQ KGLQYTEAE ISIGEDGLE 
QRLVESLSL IDAVMPDVV ASRQNQQNA QKQPIKSEI 
TDTNGEEAV VSTQNENME VDTSIEIPT SKATVLRGH 
ESEVFICAW NPTTDLLAS GSGDSTARI WDMSDNTAS 
PNQLVLRHC IQKGGTEVP SNKDVTSLD WNCDGSLLA 
TGSYDGYAR IWTTDGRLA STLGQHKGP IFALKWNKR 
GNYILSAGV DKTTIIWDA ASGQCTQQF SFHSAPALD 
VDWQTNTSF ASCSTDQCI HVCKLSLDK PIKSFQGHT 
NEVNAIKWD PQGNFLASC SDDMTLKIW SMKQDNCVH 
DLQAHSKEI YTIKWSPTG PGTQNPNMN LILASASFD 
STVRLWDVE RGACIHTLT KHTEPVYSV AFSPDGKFL 
ASGSFDKCV HIWSTQSGQ LVHSYKGTG GIFEVCWNS 
RGDKVGASA SDGSVFVLD LRKL
    CDS sequence
    • >TC003706 RA
      atgagtttt tccagcgac gaagtgaat ttccttgtt 
tatcggtac ttgcaagag tcgggtttt caacattct 
gcttatact ttcggtatt gagtcgcat atttcccga 
tcaaacatc aatggggct cttgtaccg cccgccgca 
cttctcagt attttacag aaaggtttg caatacact 
gaagctgaa atcagtata ggagaggat ggactggaa 
cagagatta gtggagagc ttaagttta atcgatgct 
gtgatgcct gatgtggtg gcgagtcgc caaaatcag 
cagaatgca caaaaacag ccgatcaaa tcggaaatt 
actgataca aatggcgaa gaagctgta gtgtcaaca 
cagaatgaa aacatggaa gtagacaca tctatcgag 
attccaact tccaaagct acagttttg agggggcat 
gagtcagag gttttcatt tgtgcgtgg aatcccact 
actgatttg ttagcaagt ggctctggg gacagcaca 
gccagaatt tgggacatg tctgataac acagcaagc 
cccaatcaa ttagtactg aggcactgc atccagaag 
gggggcact gaagtgcca agcaacaag gatgttact 
tcactagac tggaattgc gacggcagt ttattggca 
acaggaagc tacgacggc tacgccagg atatggacc 
actgacggt cgccttgcc agtactttg ggccagcac 
aagggcccc attttcgct ctgaaatgg aacaaacgt 
ggcaactac atcctttca gccggtgtt gacaaaacc 
acaatcatt tgggacgcg gcaagcggc caatgcacc 
caacagttc agttttcac tcagcccca gccttggac 
gtggactgg caaaccaac acatccttt gccagctgt 
tcaacagac cagtgcatc cacgtttgc aaactatcc 
ttagataaa ccaatcaaa tcgttccaa ggacacaca 
aatgaagtc aacgctatc aaatgggac ccccaaggc 
aatttcctg gcatcgtgt tctgacgac atgactttg 
aagatttgg tcaatgaaa caagacaat tgcgtccac 
gatttacaa gctcattcg aaggaaatt tacacgatt 
aagtggtca ccaacaggg cccgggacg caaaatccc 
aatatgaat ttaatcctc gcgtctgca agtttcgat 
tcaactgtt aggttgtgg gatgtggag agaggcgct 
tgcatacac actttgacc aagcacact gaacccgtc 
tattctgtg gcgttcagt ccagatggg aaatttctg 
gcgagcggg agtttcgac aaatgcgtt catatttgg 
tcaacacag tctggacaa ttggtgcat agttataaa 
ggcacagga ggtattttt gaggtttgt tggaactcg 
agaggggat aaagttggg gccagcgct tcagatggc 
agtgtgttt gttttagat ttgcgtaaa ttataa
    mRNA sequence
    • >TC003706 RA
      ggtcagtga cgtgcggcg ttgccgtgt gtgtttcaa 
aagcacaaa ctttatgtt ttggtggcg tcatttacc 
gaattttcc gtgaaaaac tgtaatatt gcctgaaca 
atattacca cgatgagtt tttccagcg acgaagtga 
atttccttg tttatcggt acttgcaag agtcgggtt 
ttcaacatt ctgcttata ctttcggta ttgagtcgc 
atatttccc gatcaaaca tcaatgggg ctcttgtac 
cgcccgccg cacttctca gtattttac agaaaggtt 
tgcaataca ctgaagctg aaatcagta taggagagg 
atggactgg aacagagat tagtggaga gcttaagtt 
taatcgatg ctgtgatgc ctgatgtgg tggcgagtc 
gccaaaatc agcagaatg cacaaaaac agccgatca 
aatcggaaa ttactgata caaatggcg aagaagctg 
tagtgtcaa cacagaatg aaaacatgg aagtagaca 
catctatcg agattccaa cttccaaag ctacagttt 
tgagggggc atgagtcag aggttttca tttgtgcgt 
ggaatccca ctactgatt tgttagcaa gtggctctg 
gggacagca cagccagaa tttgggaca tgtctgata 
acacagcaa gccccaatc aattagtac tgaggcact 
gcatccaga aggggggca ctgaagtgc caagcaaca 
aggatgtta cttcactag actggaatt gcgacggca 
gtttattgg caacaggaa gctacgacg gctacgcca 
ggatatgga ccactgacg gtcgccttg ccagtactt 
tgggccagc acaagggcc ccattttcg ctctgaaat 
ggaacaaac gtggcaact acatccttt cagccggtg 
ttgacaaaa ccacaatca tttgggacg cggcaagcg 
gccaatgca cccaacagt tcagttttc actcagccc 
cagccttgg acgtggact ggcaaacca acacatcct 
ttgccagct gttcaacag accagtgca tccacgttt 
gcaaactat ccttagata aaccaatca aatcgttcc 
aaggacaca caaatgaag tcaacgcta tcaaatggg 
acccccaag gcaatttcc tggcatcgt gttctgacg 
acatgactt tgaagattt ggtcaatga aacaagaca 
attgcgtcc acgatttac aagctcatt cgaaggaaa 
tttacacga ttaagtggt caccaacag ggcccggga 
cgcaaaatc ccaatatga atttaatcc tcgcgtctg 
caagtttcg attcaactg ttaggttgt gggatgtgg 
agagaggcg cttgcatac acactttga ccaagcaca 
ctgaacccg tctattctg tggcgttca gtccagatg 
ggaaatttc tggcgagcg ggagtttcg acaaatgcg 
ttcatattt ggtcaacac agtctggac aattggtgc 
atagttata aaggcacag gaggtattt ttgaggttt 
gttggaact cgagagggg ataaagttg gggccagcg 
cttcagatg gcagtgtgt ttgttttag atttgcgta 
aattataat tctttttta tgtacgtgt agataattt 
tatatttta actatttta agggaaaag atgttgcaa 
tttattttg actgttgca aaaaaagag cgacaatat 
aattattag caacta

    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