Status
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Gene information
General information
TC015467 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_007423.3: 9534374..9536783
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
      		TC015467
      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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      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_02483

      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)

      eclosion not fulfilled (with pupal and adult features) - 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: > 50
       egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      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 partially remaining - Penetrance (percentage of animals/eggs on slide): less than 30%
      larva partially everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%

      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%
      abdomen not present - 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%
      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: 10.0% (includes death as larva, prepupa, pupa, adult)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC015467 RA
        MSYFVITGK NDCPNTTHA LHVADYLTR NLPHFVYHS 
VIKTENEWM IYLDQLNSE NNWHQTKSP VIWKEISRM 
GGKKYLIGG LGEFWEYLY DYYGFQSRM SKDDLKKIM 
ADNLLIASL KQECQVHTI SIIGCSNSS VLQPHIYEL 
QQCFDEGQE TLLEIKLYD QRLDDPDEE DVMLEVIDE 
IRDTLKCVP QNLHIVLSQ EEAISNCDL LIIVQDYSR 
KSGEDIDLW LDRCRKSMV LLADDVNHF AKRSLRIVL 
NHHGPVCFN ASVLMEYCT TIRLTNIVA VTTDEAISI 
ISQMAEKVN EYVENFWCP PVWGFCGLM SYIPIQATC 
IKTNVYRPF KRALKAKAT SKLPKGVIQ PEIRFLEHL 
IKTEDDLYE EIENRKEKE KKLLGREPI LPKVRALGS 
LLKRWYAKE INDDIISLG IYSKGTFGF PRGICVSQP 
VLLNENRVW TPIPNLPLR ETTKAKIQA ISLHIDNTL 
KKYGLGQRF THTD
      CDS sequence
      • >TC015467 RA
        atgtcgtac tttgtcatc acgggcaaa aacgactgc 
cctaatacc acccacgcc ctccacgta gctgattac 
ttgacccga aatctcccc cattttgtg taccactct 
gtgataaaa acagaaaac gaatggatg atctacttg 
gaccaacta aacagtgaa aacaactgg caccagaca 
aaaagcccc gtcatttgg aaggaaatc agtagaatg 
ggagggaaa aagtacctc attggagga cttggagaa 
ttttgggag tacttgtac gactattac ggattccag 
tcacggatg agtaaagac gatttgaag aaaatcatg 
gctgataat ttacttatt gcatcgttg aaacaagaa 
tgtcaagtt catactatt agcattatt ggttgtagt 
aacagttca gttctgcaa ccacatatc tacgagtta 
caacaatgt ttcgatgaa ggtcaagag actttactt 
gaaataaaa ctgtacgat cagcgattg gacgatccg 
gatgaggaa gatgtaatg ttggaggtg attgacgaa 
attagagat acacttaaa tgcgttcct caaaactta 
cacattgtt ctgagccaa gaggaagcc atcagcaac 
tgcgatttg cttatcatt gtacaagat tacagcaga 
aagtctgga gaagatata gacttgtgg ctggaccgc 
tgccgcaaa agcatggtc ctgctcgct gacgatgtg 
aaccatttc gcgaaacgt agcctgaga atcgtccta 
aatcaccac ggtcctgtt tgctttaac gcttcagtt 
cttatggaa tattgcact accataaga ctaacaaac 
attgttgca gtaacaacg gatgaagct attagtatt 
attagccaa atggctgaa aaagtaaat gaatatgtg 
gagaatttc tggtgtcca ccagtttgg ggtttttgt 
ggactcatg tcctacatt cccatacaa gctacatgt 
atcaaaact aacgtttat agaccgttc aaaagggca 
ctcaaagct aaagctact tccaaatta cctaaaggt 
gtaatacaa cctgagatt aggtttttg gaacatttg 
atcaagact gaagatgat ctttacgaa gagattgaa 
aataggaag gaaaaggaa aaaaagttg cttgggaga 
gaaccgatt ttgccgaaa gttagagct ctggggagt 
ttgttgaaa agatggtac gccaaagag ataaatgat 
gatataatt tcgttgggg atctattcc aaaggcact 
tttggattc cctagaggt atttgcgtc tctcaacca 
gttttactc aacgaaaat agggtgtgg acaccaatt 
cctaatctt ccattacgt gaaacaacc aaagcaaaa 
attcaagca atttcttta cacattgac aatactctt 
aagaaatac gggcttggc cagagattc acacacaca 
gattga
      mRNA sequence
      • >TC015467 RA
        tctgagaaa aatatcgaa aaatatatt ttggccgag 
ctttcagct gaaaatttt gaaagctgt cccaagatt 
gtcaaaatg tcgtacttt gtcatcacg ggcaaaaac 
gactgccct aataccacc cacgccctc cacgtagct 
gattacttg acccgaaat ctcccccat tttgtgtac 
cactctgtg ataaaaaca gaaaacgaa tggatgatc 
tacttggac caactaaac agtgaaaac aactggcac 
cagacaaaa agccccgtc atttggaag gaaatcagt 
agaatggga gggaaaaag tacctcatt ggaggactt 
ggagaattt tgggagtac ttgtacgac tattacgga 
ttccagtca cggatgagt aaagacgat ttgaagaaa 
atcatggct gataattta cttattgca tcgttgaaa 
caagaatgt caagttcat actattagc attattggt 
tgtagtaac agttcagtt ctgcaacca catatctac 
gagttacaa caatgtttc gatgaaggt caagagact 
ttacttgaa ataaaactg tacgatcag cgattggac 
gatccggat gaggaagat gtaatgttg gaggtgatt 
gacgaaatt agagataca cttaaatgc gttcctcaa 
aacttacac attgttctg agccaagag gaagccatc 
agcaactgc gatttgctt atcattgta caagattac 
agcagaaag tctggagaa gatatagac ttgtggctg 
gaccgctgc cgcaaaagc atggtcctg ctcgctgac 
gatgtgaac catttcgcg aaacgtagc ctgagaatc 
gtcctaaat caccacggt cctgtttgc tttaacgct 
tcagttctt atggaatat tgcactacc ataagacta 
acaaacatt gttgcagta acaacggat gaagctatt 
agtattatt agccaaatg gctgaaaaa gtaaatgaa 
tatgtggag aatttctgg tgtccacca gtttggggt 
ttttgtgga ctcatgtcc tacattccc atacaagct 
acatgtatc aaaactaac gtttataga ccgttcaaa 
agggcactc aaagctaaa gctacttcc aaattacct 
aaaggtgta atacaacct gagattagg tttttggaa 
catttgatc aagactgaa gatgatctt tacgaagag 
attgaaaat aggaaggaa aaggaaaaa aagttgctt 
gggagagaa ccgattttg ccgaaagtt agagctctg 
gggagtttg ttgaaaaga tggtacgcc aaagagata 
aatgatgat ataatttcg ttggggatc tattccaaa 
ggcactttt ggattccct agaggtatt tgcgtctct 
caaccagtt ttactcaac gaaaatagg gtgtggaca 
ccaattcct aatcttcca ttacgtgaa acaaccaaa 
gcaaaaatt caagcaatt tctttacac attgacaat 
actcttaag aaatacggg cttggccag agattcaca 
cacacagat tgaactttg attggagtt aaaacaaat 
taaacagta caaaaaatc
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY