Status
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Gene information
General information
TC004373 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_007425.3: 6964574..6968231
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
    		TC004373
    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00685

    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)

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

    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection

    Pupal morphology
    wings size decreased - Number of animals showing the phenotype: 3

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004373 RA
      MKHFNTIFF LLLAFEINI YLTKDTKNA VVDNIYDIK 
EFKKLIRTK TNVLVCYTN SIKQASQVI KVFREAADV 
IKGQGTMVV MDCSGEAKK VCKKLKVTP DPFIFKHYK 
NGEFNRDYD RKFTVSSMV NFMRDPTGD LPWEEDASA 
SDIVHVPDA ETLAKFIRQ ESRPLMVMF YAPWCGFCK 
TLKPEYVAA AKELKGHSV LAAIDVNKP ENAVIRTLY 
NITGFPTLL YYKNGAMKF QYEGDNKRQ AIVNFMKNP 
SKPVKVKEQ EWSEVDSEV VHLTTTNFD PVVKEEASL 
LVMFYAPWC GHCKKIKPE YEKAAAKLK SDGIPGMMA 
AVDATKEVS IADRFSVKG YPTMKYFTY GEHKFDINL 
REATKIVEF MKNPKEPPP PPPPEKPWS EEESSVVHL 
NEENFKSFL KKKRHALVI FYAPWCGHC KKAKPEFTK 
AAEFFKDDP KVEFAAVDC TTYQGVCSA HEVSGYPTI 
KYFSYLNKV VKAYNSGRT ADDFIAFMS DPEGNGSSQ 
KTIVPQLTD ANFEEEISS KSAVLVMFY APWCKQCKE 
IKPEYQKAT NELKQDGFI AQLASVDCS SNPVVTDKY 
DIGTFPTFK LFLNGKFAA DFTGKSTKD DIKSFVVDV 
KNRKNKEL
    CDS sequence
    • >TC004373 RA
      atgaaacat ttcaacacg atatttttt cttcttctg 
gccttcgaa attaacatc tatttaacc aaggacaca 
aaaaatgct gtcgttgat aacatttac gatatcaag 
gagtttaaa aaattaatc aggacaaaa acgaacgtt 
ttagtttgt tacacgaat tcgatcaag caggcgtcc 
caagtgatc aaggtcttt agggaagcg gctgatgtt 
atcaagggg caaggcacc atggttgta atggactgt 
tcaggggag gcaaaaaaa gtttgtaaa aagttgaaa 
gtcacccct gatcctttc attttcaaa cattacaaa 
aatggggaa tttaaccgc gactatgac agaaaattt 
accgttagt tcaatggtt aatttcatg agggacccc 
actggggac ttaccttgg gaggaagac gcctctgct 
agtgatatt gtgcacgtt ccggacgct gagactttg 
gctaaattt atcagacag gaaagcagg cctttgatg 
gtcatgttt tacgccccc tggtgtggt ttttgcaaa 
actttgaag ccggaatat gtggcagcg gctaaagaa 
ctgaaagga cactcggtt ctggccgcc attgatgta 
aataagcct gaaaacgcc gtcattagg accttgtac 
aatattacg ggattcccc acacttttg tattacaaa 
aacggtgcg atgaaattc caatacgaa ggcgacaat 
aagcgccaa gccatcgtc aattttatg aaaaacccc 
tcaaagccg gtgaaagtc aaggaacaa gaatggtct 
gaagtcgac agcgaagtc gtccactta accacgacc 
aactttgac cccgttgtt aaagaggaa gcgtctttg 
cttgtaatg ttttacgcc ccttggtgt ggccattgt 
aagaaaatc aagcccgaa tacgaaaaa gccgccgct 
aagctcaaa tcagacggg attccaggt atgatggcc 
gcggttgat gcaacgaaa gaagtgagt attgctgac 
cgtttctcg gtcaaaggc taccccacg atgaaatat 
ttcacgtac ggggaacac aaatttgat attaatttg 
cgagaagcg acaaaaatt gtcgagttt atgaaaaat 
ccaaaagaa ccaccgccg cctccacca ccggaaaaa 
ccatggtcg gaggaggag tccagtgtt gtgcatttg 
aacgaagag aattttaaa agttttctt aaaaagaaa 
cgacacgca cttgttatt ttctacgca ccttggtgt 
ggccactgc aagaaagct aaacccgaa ttcaccaaa 
gcagcggaa tttttcaag gacgatccc aaggttgag 
tttgcagca gtggactgt acgacgtat cagggcgtt 
tgttcggct catgaagtt agcggttat cccaccatt 
aagtatttc agttatttg aataaagtt gttaaagcg 
tacaactca ggccggacg gccgatgat ttcattgcg 
tttatgtca gatccagaa ggcaatggc tcaagtcaa 
aaaacaatt gttccacaa ttgactgat gccaacttt 
gaggaagaa atctcaagc aagtcggct gtgcttgtc 
atgttttat gcaccatgg tgcaaacag tgcaaagaa 
ataaaacca gagtaccag aaagccacc aatgagttg 
aaacaggac ggatttatt gctcaatta gcttcagtt 
gactgtagt tcgaatcct gtagtcact gataagtac 
gacattggc acatttccc acttttaag ttgttttta 
aacggtaag ttcgcggcc gactttacc ggcaaaagt 
acgaaagac gatattaaa agtttcgtg gttgatgtg 
aaaaatcgt aaaaataag gaattgtga
    mRNA sequence
    • >TC004373 RA
      tcaaaagtc aacaacttg tcaattttt ttccataca 
gagtcccgg ctttaaaaa ccgtaattt cgtcttagt 
ttaacgtgg gccgacgca ttccacgtc caaaagtac 
ttaaatgac ttaaataaa catgtttta agtcattaa 
tttaaaaaa atccacgta aatttgtcc aaaacacga 
tgaaacatt tcaacacga tattttttc ttcttctgg 
ccttcgaaa ttaacatct atttaacca aggacacaa 
aaaatgctg tcgttgata acatttacg atatcaagg 
agtttaaaa aattaatca ggacaaaaa cgaacgttt 
tagtttgtt acacgaatt cgatcaagc aggcgtccc 
aagtgatca aggtcttta gggaagcgg ctgatgtta 
tcaaggggc aaggcacca tggttgtaa tggactgtt 
caggggagg caaaaaaag tttgtaaaa agttgaaag 
tcacccctg atcctttca ttttcaaac attacaaaa 
atggggaat ttaaccgcg actatgaca gaaaattta 
ccgttagtt caatggtta atttcatga gggacccca 
ctggggact taccttggg aggaagacg cctctgcta 
gtgatattg tgcacgttc cggacgctg agactttgg 
ctaaattta tcagacagg aaagcaggc ctttgatgg 
tcatgtttt acgccccct ggtgtggtt tttgcaaaa 
ctttgaagc cggaatatg tggcagcgg ctaaagaac 
tgaaaggac actcggttc tggccgcca ttgatgtaa 
ataagcctg aaaacgccg tcattagga ccttgtaca 
atattacgg gattcccca cacttttgt attacaaaa 
acggtgcga tgaaattcc aatacgaag gcgacaata 
agcgccaag ccatcgtca attttatga aaaacccct 
caaagccgg tgaaagtca aggaacaag aatggtctg 
aagtcgaca gcgaagtcg tccacttaa ccacgacca 
actttgacc ccgttgtta aagaggaag cgtctttgc 
ttgtaatgt tttacgccc cttggtgtg gccattgta 
agaaaatca agcccgaat acgaaaaag ccgccgcta 
agctcaaat cagacggga ttccaggta tgatggccg 
cggttgatg caacgaaag aagtgagta ttgctgacc 
gtttctcgg tcaaaggct accccacga tgaaatatt 
tcacgtacg gggaacaca aatttgata ttaatttgc 
gagaagcga caaaaattg tcgagttta tgaaaaatc 
caaaagaac caccgccgc ctccaccac cggaaaaac 
catggtcgg aggaggagt ccagtgttg tgcatttga 
acgaagaga attttaaaa gttttctta aaaagaaac 
gacacgcac ttgttattt tctacgcac cttggtgtg 
gccactgca agaaagcta aacccgaat tcaccaaag 
cagcggaat ttttcaagg acgatccca aggttgagt 
ttgcagcag tggactgta cgacgtatc agggcgttt 
gttcggctc atgaagtta gcggttatc ccaccatta 
agtatttca gttatttga ataaagttg ttaaagcgt 
acaactcag gccggacgg ccgatgatt tcattgcgt 
ttatgtcag atccagaag gcaatggct caagtcaaa 
aaacaattg ttccacaat tgactgatg ccaactttg 
aggaagaaa tctcaagca agtcggctg tgcttgtca 
tgttttatg caccatggt gcaaacagt gcaaagaaa 
taaaaccag agtaccaga aagccacca atgagttga 
aacaggacg gatttattg ctcaattag cttcagttg 
actgtagtt cgaatcctg tagtcactg ataagtacg 
acattggca catttccca cttttaagt tgtttttaa 
acggtaagt tcgcggccg actttaccg gcaaaagta 
cgaaagacg atattaaaa gtttcgtgg ttgatgtga 
aaaatcgta aaaataagg aattgtgag atttttact 
gcatatttt ggaaataaa aaacggt

    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