Status
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Gene information
General information
TC001440 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_007416.3: 3893417..3897196
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
    TC001440
    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
    {{ blurEvidenceResult }}
    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
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    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03188

    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)

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


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    larva partially dorsalnot fused - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment potentially partiallyfused - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen circumference irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001440 RA
      MTMSLKLFT FGILTGLIW TEIRCDAPL SDSASLPLE 
      HRGVYGPPL SGPGYAPPA ILQGAGGGS SDDPWPLAT 
      PDMPQIKHL QVQCEKTHM RVNIEFDRP FYGMIFSKG 
      FYSDPHCVH LKPGTGHLS ATFEIFLNS CGMSSSANH 
      NAGNYGGPT PSGSYVENT IIIQYDPYV QEVWDQARK 
      LRCTWYDFY EKAVTFRPF QVDMLHAVT ANFLGDNLQ 
      CWMQIQVGK GPWASEVSG IVKIGQTMT MVLAIKDDE 
      NKFDMLVRN CVAHDGKRA PIQLVDQYG CVVRPKIMS 
      KFQKIKNFG PSASVVSFA YFQAFKFPD SMNVHFQCV 
      IQVCRYNCP EPKCGNHGL SLSSEYGPP PLGNSLGSG 
      DFGGHAEYA SQSLSEYGV PPAFPDPRH PSGPTGAYS 
      DNNPDVVPA PQSQISSSS TSNPPNLSS PAPQISAQN 
      GGDVHLPPP PPPGHHGVY NTVKRKSSV PEEFEGNLA 
      TLGGRPRSV ENIPELQGA RKRRSLDSI NIVVNHVYK 
      REAQEMTDV NTSRTIQVV APGDVNFAL NPSQSNETV 
      VIQSASSSD PETICMSVP SFVAGLVML LLVLIVASL 
      VAAFLFVRV RAIDRKGIA TVFAGARGY DNAEFVKVA 
      N
    CDS sequence
    • >TC001440 RA
      atgactatg tcattaaag cttttcacc tttgggata 
      ttaaccgga ctgatttgg acggagata cggtgtgat 
      gccccactt tcggattcg gcgtctctg cctttagag 
      caccggggc gtgtacggg ccccccttg tcagggccg 
      gggtacgcg cccccggcg attctgcaa ggggctggg 
      ggcggctcc tcggatgac ccctggccc ttggcaacc 
      cccgacatg ccccagatc aagcaccta caagtgcag 
      tgcgaaaag actcacatg cgagtcaac atcgagttt 
      gaccggccg ttttacgga atgattttc tcgaaggga 
      ttctacagc gacccgcac tgcgtgcac ctgaagccc 
      gggaccggg catttgagt gcgacgttc gaaatattt 
      ctgaatagt tgcgggatg tcctcatcc gcaaaccac 
      aatgcgggc aattacggg gggccgacg cctagcggc 
      agctacgtc gagaacacc atcataatc cagtacgac 
      ccttacgtg caagaagtt tgggaccaa gcgcgcaaa 
      ttgcgctgc acttggtac gatttttac gaaaaggcg 
      gtcacgttc cgaccgttc caagtggat atgttgcac 
      gcggtcact gccaatttc ctaggcgat aatttgcaa 
      tgctggatg cagattcaa gtcggcaaa ggtccgtgg 
      gcgtcggaa gtgtcggga atcgtcaaa attggacaa 
      accatgacc atggtcttg gctatcaaa gacgacgaa 
      aacaaattc gacatgttg gtacgcaat tgcgtggcg 
      catgatgga aaacgcgcc cctatccag cttgtggac 
      caatacggt tgtgtcgta cggccaaag atcatgagc 
      aagttccag aaaattaaa aacttcggg ccttcggcc 
      tccgtggtc tcgttcgcc tatttccaa gctttcaaa 
      ttccccgat tccatgaac gtgcacttc caatgcgtg 
      attcaagtt tgtcggtac aattgtcca gaacccaaa 
      tgtggaaac cacggtttg agtttaagt agcgaatac 
      gggcctcca ccgctaggc aattcgctt ggtagcgga 
      gactttggt ggtcacgct gaatacgcg tctcagtct 
      ttgtccgaa tacggcgtt ccgccggcg ttcccagac 
      cctagacac ccttctggg cccaccgga gcgtactcg 
      gataacaac cctgatgtt gttccagcc ccacagtca 
      caaatctcc tcgtcttcg acgtcaaat ccgccgaat 
      ttgtcgtca ccagctccg caaatttcc gcccaaaac 
      ggcggcgac gtccacttg ccgcccccg ccgccgccg 
      ggccaccac ggagtgtac aacacagtg aagcggaaa 
      agcagtgtt ccggaggag tttgaaggg aatctcgcg 
      actctcggg ggacgaccg cgttcggtt gaaaacatc 
      ccggaattg caaggtgcc agaaagagg cgcagtctt 
      gactcgata aacattgta gttaaccat gtttacaaa 
      cgagaagct caagaaatg actgatgtc aatactagt 
      cgaacgatt caagtcgta gctcccggt gatgtcaat 
      tttgcgctg aacccgtca caaagcaac gaaactgtg 
      gtcattcag tcggcgtcc tcgtcggac ccagagaca 
      atttgcatg tctgttccc agttttgtg gctgggtta 
      gttatgttg ctcttggta ctcattgtt gctagttta 
      gtagctgcg tttttgttt gttcgcgtt cgggctatt 
      gatcgaaaa ggcatcgca acggtcttt gcaggagct 
      cggggttat gataacgcc gagtttgtg aaagtggct 
      aattga
    mRNA sequence
    • >TC001440 RA
      tattacttt tcacccaac tgttgtact cggttaatg 
      tgttgagaa aaactgtgc ttgaggggg attgcagtg 
      ctggtgtta gtgttcggt gactgggat ttatgactt 
      ttttgtgtt aatctgagc gacaatttc ggattagta 
      aaagctggc acagcaaag acgatgact atgtcatta 
      aagcttttc acctttggg atattaacc ggactgatt 
      tggacggag atacggtgt gatgcccca ctttcggat 
      tcggcgtct ctgccttta gagcaccgg ggcgtgtac 
      gggcccccc ttgtcaggg ccggggtac gcgcccccg 
      gcgattctg caaggggct gggggcggc tcctcggat 
      gacccctgg cccttggca acccccgac atgccccag 
      atcaagcac ctacaagtg cagtgcgaa aagactcac 
      atgcgagtc aacatcgag tttgaccgg ccgttttac 
      ggaatgatt ttctcgaag ggattctac agcgacccg 
      cactgcgtg cacctgaag cccgggacc gggcatttg 
      agtgcgacg ttcgaaata tttctgaat agttgcggg 
      atgtcctca tccgcaaac cacaatgcg ggcaattac 
      ggggggccg acgcctagc ggcagctac gtcgagaac 
      accatcata atccagtac gacccttac gtgcaagaa 
      gtttgggac caagcgcgc aaattgcgc tgcacttgg 
      tacgatttt tacgaaaag gcggtcacg ttccgaccg 
      ttccaagtg gatatgttg cacgcggtc actgccaat 
      ttcctaggc gataatttg caatgctgg atgcagatt 
      caagtcggc aaaggtccg tgggcgtcg gaagtgtcg 
      ggaatcgtc aaaattgga caaaccatg accatggtc 
      ttggctatc aaagacgac gaaaacaaa ttcgacatg 
      ttggtacgc aattgcgtg gcgcatgat ggaaaacgc 
      gcccctatc cagcttgtg gaccaatac ggttgtgtc 
      gtacggcca aagatcatg agcaagttc cagaaaatt 
      aaaaacttc gggccttcg gcctccgtg gtctcgttc 
      gcctatttc caagctttc aaattcccc gattccatg 
      aacgtgcac ttccaatgc gtgattcaa gtttgtcgg 
      tacaattgt ccagaaccc aaatgtgga aaccacggt 
      ttgagttta agtagcgaa tacgggcct ccaccgcta 
      ggcaattcg cttggtagc ggagacttt ggtggtcac 
      gctgaatac gcgtctcag tctttgtcc gaatacggc 
      gttccgccg gcgttccca gaccctaga cacccttct 
      gggcccacc ggagcgtac tcggataac aaccctgat 
      gttgttcca gccccacag tcacaaatc tcctcgtct 
      tcgacgtca aatccgccg aatttgtcg tcaccagct 
      ccgcaaatt tccgcccaa aacggcggc gacgtccac 
      ttgccgccc ccgccgccg ccgggccac cacggagtg 
      tacaacaca gtgaagcgg aaaagcagt gttccggag 
      gagtttgaa gggaatctc gcgactctc gggggacga 
      ccgcgttcg gttgaaaac atcccggaa ttgcaaggt 
      gccagaaag aggcgcagt cttgactcg ataaacatt 
      gtagttaac catgtttac aaacgagaa gctcaagaa 
      atgactgat gtcaatact agtcgaacg attcaagtc 
      gtagctccc ggtgatgtc aattttgcg ctgaacccg 
      tcacaaagc aacgaaact gtggtcatt cagtcggcg 
      tcctcgtcg gacccagag acaatttgc atgtctgtt 
      cccagtttt gtggctggg ttagttatg ttgctcttg 
      gtactcatt gttgctagt ttagtagct gcgtttttg 
      tttgttcgc gttcgggct attgatcga aaaggcatc 
      gcaacggtc tttgcagga gctcggggt tatgataac 
      gccgagttt gtgaaagtg gctaattga caatctgtt 
      tacaaatca gcaaagtac attccgaag attccaaag 
      atgttcagg tcaatcaag tgattgtgc gtatgaatc 
      taccggcca atgtgcggt catttttca ccctccctc 
      gcaccccct ctcgagaac tgttttcaa cattacaca 
      tatttcgtt aattattta ttatctcat taaacactt 
      gtgctcaca agcggcgct cgacgccgt tgtcagcat 
      gacctacct aatgtttgt tattattta taatactta 
      ggctatttt tttattact taggttact taagtgtaa 
      tttaacact gtataatgt actacttga gagtatgat 
      tgtaagata tttgtttga aaaacatat taattattt 
      attaatact tctaagttt attttgctc gtgttagag 
      caactgttt ccactgccc cgaacatgc tacatcaac 
      aggtgcaga aactagtct cgtagttag aacatagtc 
      ttcatgtaa atacatatt tgtatcaaa atactcaat 
      aaaatcaag caaattgag attattaac actgcattt 
      ttagcacac cattcgcct gtaacggtt gttaaaagt 
      gccgccatt tgcatgaat ctttaacgg tgtgataat 
      ctgataatc caaaaaccg aaagaaagt taatacttt 
      tcaaggaca gggaccttc aaactggca tatttagtt 
      tacgtacta gatataaaa tattgtatg tatgaggac 
      tcataaaac aatttcaaa ttaaatctt gtttttctt 
      t
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