Status
Please wait ...
Gene information
General information
TC014264 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_007420.3: 8123119..8126832
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
      		TC014264
      Gene ontology

      GO terms for Tribolium

      • {{ goTerm.term }}
        ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
        {{goTerm.showAll ? '[-]' : '[+]'}}
        Status: {{ goTerm.status }}
        Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
        Reference: {{ goTerm.referenceText }}
        Quotation: {{ goTerm.quotation }}
        Submitter: {{ goTerm.name }}

      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 *
      {{ blurIdResult }}
      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
      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
      If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
        {{ unavailableText }}

      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_05598

      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)

      pupa eclosion not fulfilled (died as pupa) - 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): less than 30%

      larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

      larval musculature potentially degenerated - 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): more than 80%
      remarks: muscle pattern potentially obscured by segmentation defect,
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: > 50
       egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
      cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%

      cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

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

      Comment: many of the almost wt looking animals show a missing labrum (maybe the weakest phenotype). in some cases this comes along with a fused antenna.
      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%
      thorax everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

      Comment: often the head or anterior larva looks more less all right whereas the more posterior is upended.
      abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      abdomen everted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      Comment: often the head or anterior larva looks more less all right whereas the more posterior is upended.
      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 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: -1.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC014264 RA
        MKLFVTLPF LSTLILAVY SFGGSEDKF LKKYAMMKI 
YESCFGPEV VKQIRKEMR AACAKCSAL ETPPAPEQK 
PPNKNEENQ FPAPPNFDA EKLHHAILA YRPNSPPSP 
FYRPYAPAA GMTPFYGLP YANPAYPNP LIYPAFSQQ 
PSQFSPYGA FPMLGQSFY GNRASRDMD FKTQLEALT 
SKMSNKVRN VTCVMQELG YLDENLEPN FLRISERIS 
ALPVGEDLK RDMQDGVTF CQQFSQCVP DVKKDKSPL 
SRELIRPMF FFKCYKHKK LEACIMKDV REKYAGVAD 
DEFDNDVEL RRTGKGMDV TKSQEEVDE MATSMYEFL 
YGGESNVNI EGLL
      CDS sequence
      • >TC014264 RA
        atgaagctc ttcgttact ttaccattt ttatcaaca 
cttatcctc gcggtgtat tcattcgga gggagtgaa 
gacaagttt ttaaagaaa tatgcaatg atgaagatt 
tacgaaagt tgttttggc cccgaagtt gtgaagcaa 
atccgaaaa gaaatgcga gcggcttgt gccaaatgc 
tcggctttg gaaacacca cccgctcca gaacaaaaa 
ccaccaaat aaaaacgaa gaaaaccaa tttccagct 
ccgccgaat ttcgatgcc gaaaaactg catcacgcg 
attttggct tatagaccg aactctcca ccatcgccg 
ttttatcga ccatacgca cccgcagca gggatgacc 
cctttttac ggcttacct tatgccaac ccagcctac 
cccaacccc ttgatttac cccgcattt tcgcaacaa 
ccgagccaa ttttcccca tatggcgcc ttccccatg 
cttggccaa tcgttttat ggcaacagg gcttcccgc 
gacatggat tttaaaaca caactggaa gctctgacc 
tcaaaaatg agcaacaaa gtcaggaac gtcacctgc 
gtgatgcag gaattgggc tatttggac gagaatttg 
gagcccaac tttttgaga attagcgaa aggatctcc 
gctttgcct gtcggtgag gatttgaag cgggatatg 
caagacggg gttacgttc tgtcagcaa ttttcgcaa 
tgtgtcccc gatgtgaaa aaggacaaa tcaccgctt 
tcgcgcgaa cttattcgt cccatgttc ttcttcaaa 
tgttacaag cataaaaaa ttggaagct tgtattatg 
aaggatgtg agggagaaa tatgcgggg gttgctgat 
gacgagttt gataatgat gttgaattg aggaggact 
ggaaaaggt atggatgtg acgaagtcg caggaagaa 
gttgacgaa atggcgacg tcaatgtat gaatttttg 
tatggggga gagagcaat gtgaatatt gaaggcctt 
ttgtag
      mRNA sequence
      • >TC014264 RA
        tggtaacaa aaagtcaaa catctcctg aatcgaaga 
ggtggaaga atataaatg gtgaatgaa aacaacagt 
cgaagagtc caggtgaag acagtgtct taagcactc 
tgtgttgcg atagtactc ggaattagg agactgaac 
caaaatgaa gctcttcgt tactttacc atttttatc 
aacacttat cctcgcggt gtattcatt cggagggag 
tgaagacaa gtttttaaa gaaatatgc aatgatgaa 
gatttacga aagttgttt tggccccga agttgtgaa 
gcaaatccg aaaagaaat gcgagcggc ttgtgccaa 
atgctcggc tttggaaac accacccgc tccagaaca 
aaaaccacc aaataaaaa cgaagaaaa ccaatttcc 
agctccgcc gaatttcga tgccgaaaa actgcatca 
cgcgatttt ggcttatag accgaactc tccaccatc 
gccgtttta tcgaccata cgcacccgc agcagggat 
gaccccttt ttacggctt accttatgc caacccagc 
ctaccccaa ccccttgat ttaccccgc attttcgca 
acaaccgag ccaattttc cccatatgg cgccttccc 
catgcttgg ccaatcgtt ttatggcaa cagggcttc 
ccgcgacat ggattttaa aacacaact ggaagctct 
gacctcaaa aatgagcaa caaagtcag gaacgtcac 
ctgcgtgat gcaggaatt gggctattt ggacgagaa 
tttggagcc caacttttt gagaattag cgaaaggat 
ctccgcttt gcctgtcgg tgaggattt gaagcggga 
tatgcaaga cggggttac gttctgtca gcaattttc 
gcaatgtgt ccccgatgt gaaaaagga caaatcacc 
gctttcgcg cgaacttat tcgtcccat gttcttctt 
caaatgtta caagcataa aaaattgga agcttgtat 
tatgaagga tgtgaggga gaaatatgc gggggttgc 
tgatgacga gtttgataa tgatgttga attgaggag 
gactggaaa aggtatgga tgtgacgaa gtcgcagga 
agaagttga cgaaatggc gacgtcaat gtatgaatt 
tttgtatgg gggagagag caatgtgaa tattgaagg 
ccttttgta gacaattaa tgaaaaata gccgttaga 
aaatactca taattccta tataatcta gtattatgt 
atttttaca ttggcagat gtagatttt gtatcacgt 
atttatttt tgaattgaa ttttgacaa cggaataga 
tccctcttg gtcatgttt tattgtcaa aatttgata 
acaagggca acgaaaggc acaaaataa aggttatta 
acaaaa

      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