Status
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Gene information
General information
TC011533 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: 3639893..3645097
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
      		TC011533
      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_05050

      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: 20.0% (includes death as pupa, adult)

      adult lethality immediately after eclosion - Number of animals showing the phenotype: 1 (3 dpi)
      Days post injection

      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: < 20
      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
      • >TC011533 RA
        MGCASSSPL VESGKNLVE TAKNQAGDV 
VNKGEKTLQ DVGDTVKEK ISTEMEHVK 
EAMQSAMNT AENSIGSVM GKMGNSINS 
ASEEVKDTV NNMEDEAEE ALHVASDSA 
AEAVSEAET VLASEAENA KEMLTSTAN 
DAFDKFDSG EKAIEKKLH EMQEKVEDG 
LEIEDMEQH YDMLGEGVK NVEKKVEEI 
VAKLPTPAA SPTKEPQKE E
      CDS sequence
      • >TC011533 RA
        atgggttgt gcaagtagc agtccactt gtggaaagt 
ggaaagaac ttagtggag actgcaaaa aatcaagcc 
ggtgatgtt gtgaacaaa ggggaaaag acactgcaa 
gatgtagga gataccgta aaagaaaaa attagcact 
gaaatggag cacgtgaag gaagcaatg cagtcagcc 
atgaatacg gccgaaaac agcataggc tcagtgatg 
ggcaaaatg ggcaacagc ataaattca gcaagtgag 
gaagtaaaa gacactgta aacaacatg gaagacgag 
gctgaggaa gcactacat gttgcctcg gattcggca 
gcggaagcg gtttctgaa gctgaaacc gtcctagcg 
tcagaagcc gaaaacgcg aaagaaatg ttaacgtca 
acggcaaac gatgcgttt gataaattt gattccggt 
gagaaagcg atagagaaa aaattgcac gaaatgcag 
gagaaagtc gaagacggg ttggagatt gaagacatg 
gagcagcat tacgatatg ttaggagaa ggtgtaaaa 
aatgtagaa aagaaagtt gaggaaatt gtagcaaag 
ttacccact cctgcagct tcgccgacc aaggaaccg 
cagaaggag gagtaa
      mRNA sequence
      • >TC011533 RA
        tcaaaaata aacataaaa atataattt aaccattta 
ccgagacct tttcaatta ggtatcata atgaaatta 
agcgaaaac gcaaaatcg ttttcttta tttctacta 
tttacaatg attccgtga cattcaaaa aatccaagc 
tattgcagg aaacctttt aaaacactc atttagaaa 
gaagagttt ttaaacttt gttaaaata gcatttttt 
taataattt caaatattt tgtctccga attcgttct 
gtgtttaga atttttttt ttggtctat ttactgttg 
tatctgtct ttatatttg atctctaaa ctcagaagc 
aatattcgt gcctctaat tggaagtta ctaatcaca 
ttgtgcaaa agcagttaa gtaattttt agtttcgaa 
aaagagtgt attctagtt cacacactt ttagcacac 
cttgccctt atctaagaa aatataact gtggcctca 
ataaaatat agtccctga cacgcaatc gacaagata 
taatcttaa aaattgttt taaacacag ctggaaacg 
ttatactca atgttttgt ataagttca tactcgaaa 
ttattataa attggacac ttaactcac cataaaaca 
atttacttt aattcaatt tcaggttcg tagttctat 
acaaaatta tagttttta gtccaaatc ctgtcttga 
ctaatgtat ccagtcatt attctgcaa tcaatgtca 
taaaaagag aaacattct ataaattag atttgttta 
aaatatatt tcctcaaca ctgaatgtt agaagcaat 
attagtttc caacacaca aaagtgcac cttacagtc 
ggcaacatt tacagcaaa aaacccatt atctgtaat 
gtttttctt agataagta actagaaga tggatgtgg 
atagattgt gtgtattta acaaatttt taaaggcat 
aaaacaggc ataaaactt attaaaagt cgatccgaa 
tttttaaaa ccgacagtt ttagaatcg tttgggatt 
tatttttca agtcacaca cgctaaaat ttacgataa 
aattaaaat caaaaatat aaattcacc gtttaatgg 
gtacatcaa aaattaata cgcatatca cgttttatg 
tagcaagtt ttacactaa ttagtttag attagtttt 
gaatcaaat gcctaaatg ttcatcggc actaaagat 
gtaccatat caatatctt ctgtaatat ttaaatcag 
aatttgata cgttacaat gttacacag ttgttacca 
acttgttgt aaaatagct agctacgta ttcagtaaa 
tagcagaac gttaataaa tatctgcac tctaaatta 
aggtgccct aaatatttt tatatgtgt atatttaaa 
actccacgg caagggtgc cagacgtaa tgaccgctg 
gtcagtttt accgacttg gtcgttaca aacagtagt 
aaaatgggt tgtgcaagt agcagtcca cttgtggaa 
agtggaaag aacttagtg gagactgca aaaaatcaa 
gccggtgat gttgtgaac aaaggggaa aagacactg 
caagatgta ggagatacc gtaaaagaa aaaattagc 
actgaaatg gagcacgtg aaggaagca atgcagtca 
gccatgaat acggccgaa aacagcata ggctcagtg 
atgggcaaa atgggcaac agcataaat tcagcaagt 
gaggaagta aaagacact gtaaacaac atggaagac 
gaggctgag gaagcacta catgttgcc tcggattcg 
gcagcggaa gcggtttct gaagctgaa accgtccta 
gcgtcagaa gccgaaaac gcgaaagaa atgttaacg 
tcaacggca aacgatgcg tttgataaa tttgattcc 
ggtgagaaa gcgatagag aaaaaattg cacgaaatg 
caggagaaa gtcgaagac gggttggag attgaagac 
atggagcag cattacgat atgttagga gaaggtgta 
aaaaatgta gaaaagaaa gttgaggaa attgtagca 
aagttaccc actcctgca gcttcgccg accaaggaa 
ccgcagaag gaggagtaa gtggtctga tgtgagtgt 
taaccaaaa tcgtgctgg atttgctct gtacaaagt 
gatgattgg tcttggagt gaatagcac gagcattat 
acaaagata ttgtaaata gagatagct ttttggacc 
cctagctga tgataaatt ttctatttt actttacat 
acaatttgg aaaataaat cttattaaa gacaggatg 
catctcttt tatttttcc attatcatt gcttcgcaa 
caattgtgc caaagctcg actataaat aggcccgat 
tctaggtac gatattagt tgatttgca aatttattc 
aacgcatac agacaggtg gtaaattga ctttctgtt 
atggaa

      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