Status
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Gene information
General information
TC002468 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: 28025818..28030800
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
      		TC002468
      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
      If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_00382

      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: 0.0% (includes death as pupa, adult)

      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 20
       remarks - cuticles: eggs lost,
      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: 0.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

      larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
      Days post injection

      pupal molt not fulfilled (died with pupal and larval features) - Number of animals showing the phenotype: 1 (16 dpi)
      Days post injection

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC002468 RA
        MGDWENLPV ELLAHLYSY LSRRDRLSC SLVCENWKS 
GLDHVILWK TVIVHVDSD LMEPSTVIL LRDYCKYIK 
NLEFGWAVP HRNNKWAQV RYKELTKRA VRFFLVLYD 
NYIQIHSLR IFNWFDFMS FQKVTYHLS RFLKNQVSL 
KKIIFDNIN MHSANYMKV LTSCLGSRG TITHLDIRS 
CYYCQSSFD AIYFRSCIE QLTYLKSFK LDYFILSCR 
LIDSILTSK NRSLEHLEI VLKETSWHD HVIDDEQWC 
LLCSACPNL KVTLIIRNV YHYGELRLY LKQSIPIVS 
LSIILPRVM DRGGRWNFG KTLNLLVSN YHRTLETID 
LHIKNDGEV VDDVLLRLI HRCSKLKSF LFNGYLENP 
QLLKSSFSD ITFFCMTPN SLPDKHLVF NKVIRDDVT 
ELRHKRVQF TLIKRSPKS ICSLLVLN
      CDS sequence
      • >TC002468 RA
        atgggagat tgggaaaac ttgcctgtg gagttgttg 
gctcatttg tactcttac ctgtctaga agagaccga 
ctctcctgc tccctggtc tgcgagaac tggaaaagt 
ggtctcgat catgtgatt ttgtggaag actgtgatc 
gtccatgtg gattcggac ttgatggaa cccagtacc 
gtgattttg ttaagggat tattgtaaa tatatcaaa 
aatctggag tttgggtgg gccgtccct cacagaaac 
aacaaatgg gcacaagtt aggtataag gaactgacc 
aagagagct gtgcggttt tttctcgtt ttgtacgac 
aactacatc caaatccac agtttgagg atttttaac 
tggttcgac tttatgtcc ttccaaaaa gttacgtac 
catttatcg agattcctc aaaaaccaa gtgagtctc 
aaaaaaatc atctttgac aatatcaac atgcacagt 
gcgaactac atgaaagta ctaacttct tgtttgggc 
tctagaggc actataacg cacttagac atccgcagt 
tgttactac tgccagtct tcattcgat gcgatctat 
ttcagaagt tgtatcgaa caactcact tacctgaaa 
agcttcaaa cttgattat ttcatcctg tcgtgcaga 
ttaattgac tcgattttg accagtaag aacagatct 
ttggaacat ttggaaatt gttttgaaa gaaacatca 
tggcatgac cacgttata gacgatgaa cagtggtgt 
ctactgtgc agtgcatgc cccaatctc aaggtcact 
ctaatcatt cgaaatgtg taccattac ggtgaattg 
cgcctctac ctcaaacaa tcgatcccg atcgtgtcc 
ctctctatt attctacca cgagttatg gacagagga 
ggcagatgg aatttcgga aaaacgcta aatttacta 
gtgagcaac taccaccga actcttgaa accatcgat 
ttgcatatc aaaaacgat ggagaagtt gtagacgac 
gtccttctg cgactgatc caccgctgt tcaaaattg 
aaaagtttc ctctttaac ggctacttg gaaaacccc 
caacttctc aaaagctcg ttcagcgat atcaccttc 
ttctgcatg accccgaac tccctcccc gacaaacac 
ctcgttttc aacaaagtc attcgagac gatgtcact 
gaactgaga cacaaacgg gtgcagttc accctaatc 
aagcgtagc cctaagtca atttgttcg ctacttgtc 
ttaaattaa
      mRNA sequence
      • >TC002468 RA
        acaaataaa attaacgta ggattaagt gagccccca 
tagctctaa gtagatata agcagagga tgccagacc 
ctattcgat ggtccggac acgatggga gattgggaa 
aacttgcct gtggagttg ttggctcat ttgtactct 
tacctgtct agaagagac cgactctcc tgctccctg 
gtctgcgag aactggaaa agtggtctc gatcatgtg 
attttgtgg aagactgtg atcgtccat gtggattcg 
gacttgatg gaacccagt accgtgatt ttgttaagg 
gattattgt aaatatatc aaaaatctg gagtttggg 
tgggccgtc cctcacaga aacaacaaa tgggcacaa 
gttaggtat aaggaactg accaagaga gctgtgcgg 
ttttttctc gttttgtac gacaactac atccaaatc 
cacagtttg aggattttt aactggttc gactttatg 
tccttccaa aaagttacg taccattta tcgagattc 
ctcaaaaac caagtgagt ctcaaaaaa atcatcttt 
gacaatatc aacatgcac agtgcgaac tacatgaaa 
gtactaact tcttgtttg ggctctaga ggcactata 
acgcactta gacatccgc agttgttac tactgccag 
tcttcattc gatgcgatc tatttcaga agttgtatc 
gaacaactc acttacctg aaaagcttc aaacttgat 
tatttcatc ctgtcgtgc agattaatt gactcgatt 
ttgaccagt aagaacaga tctttggaa catttggaa 
attgttttg aaagaaaca tcatggcat gaccacgtt 
atagacgat gaacagtgg tgtctactg tgcagtgca 
tgccccaat ctcaaggtc actctaatc attcgaaat 
gtgtaccat tacggtgaa ttgcgcctc tacctcaaa 
caatcgatc ccgatcgtg tccctctct attattcta 
ccacgagtt atggacaga ggaggcaga tggaatttc 
ggaaaaacg ctaaattta ctagtgagc aactaccac 
cgaactctt gaaaccatc gatttgcat atcaaaaac 
gatggagaa gttgtagac gacgtcctt ctgcgactg 
atccaccgc tgttcaaaa ttgaaaagt ttcctcttt 
aacggctac ttggaaaac ccccaactt ctcaaaagc 
tcgttcagc gatatcacc ttcttctgc atgaccccg 
aactccctc cccgacaaa cacctcgtt ttcaacaaa 
gtcattcga gacgatgtc actgaactg agacacaaa 
cgggtgcag ttcacccta atcaagcgt agccctaag 
tcaatttgt tcgctactt gtcttaaat taaagtgaa 
gcccaaatt ttttattta agtcggacc tgtacagct 
tttacaatg catattcaa ggcccccct tgaggtgaa 
gcccgaact acaaaactg gcacacgta ggggcgttc 
gccggtgtg ccccctcaa gtgaatacg taagggggc 
cccctgact gaagcattt cccgcagta ttcacacga 
gtagggctt ttccccact gtgtaccct ctcatgcat 
caccaaata atccttctt ggtgaaact tttagcaca 
gtagctgca agtgtaagg tttgacgcc tgtgtggac 
tctgtagtg aactctaag tttgttttt ctgggcgaa 
acctttgcc acataagtc acacaagtg ttttttctc 
atgtggaag cttcacttc gacgtgttt gtcttggaa 
atgcttctg gagtgtctc aactttgct gaaaacttt 
gctacagac gctacattg attggggag gaggcggcc 
ttcaattcc aactcgatg gcacctcac ttggtgtgt 
taggaggta cctggagta ggcaaaatc cttgttgca 
cacaataca aataaaggg acgcaaccc caagtgctc 
attattgtg ttctttgta caaaaccac atcgttaaa 
acctttacc acacgtagt acaaacgta gtaaaattt 
cctcaagtg gacgtagtt tatatgaat caaaagact 
cttgcgttt ggctgtctt gtacgtaca ttgaggaca 
cctgaagag cttgtcctt gctatgtat gaccatgtg 
ggtgccata actgtacgc tttagtgaa tctctgttg 
gcaaattgt acactcgaa aaattcctc gtgtccttt 
gacatgttt ctcgatttc ttcgcgttc ttggtactc 
ggctgagca agtgttgca aatgtagat ttcctgtat 
ttcgtcgaa tttgtaagt gtgtttttc gaacgagtc 
gtcagtggt gtgtgtttt gcgatgctt gcgcaacag 
gaggattgt tttgaactc ttgggagca tttgttgca 
agaccaggt tttgttgga attatatga gcgcttgcg 
acgagtgca agtctcgtc ttcgcttag gtcgctagg 
ggtataggt ggtgtcgat ggttttgcg tttgcggcg 
taagcgtct gaaagagaa atgggttat ttagggcga 
aaaagctat tttaatatg cttgccgtc aggctattt 
aaatgtcag ttattacag aaaatcgct tattttaca 
aatgctacc aaaaatttg agaacagtg gatgcaata 
gagtggccg ttctagtgt gttgacttt aataaaact 
gtaattaat aa

      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