Status
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Gene information
General information
TC031792
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC005121 		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.

NW_015450232.1: 63703..70693
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
      		TC031792
      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_06663

      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: 30.0% (includes death as pupa, adult)

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

      Analysis of embryonic musculature and early development
      low validity due to technical reasons - should be repeated: musculature not scorable,
      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): more than 80%
      head size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
      head appendages mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%

      labium present - Penetrance (percentage of animals/eggs on slide): less than 30%

      head irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      Comment: just one larva on slide
      legs shortened - Penetrance (percentage of animals/eggs on slide): less than 30%

      legs shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      thorax irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      Comment: just one larva on slide
      abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

      abdomen irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
      Comment: just one larva on slide
      affected eggs/embryos/larvae - 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: % (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
      • >TC031792 RA
        MSKPDLKSV IELKKEVAR MEEVANFLR IENFEYALK 
INRLENIIT SIQAVTKDH PAKLVELSD GLLKIIHTC 
NEVNPSTAP APETKETTP KDQSQISVK VTPASPSTS 
RPSKAHVVK PHMVNGHIL YIPTINLTR ISENNSLQR 
ENNSLVEDS TLRGTTAAS TSSQTIETE NNSTREFHS 
GSVSHLENV SQASTSRSP THSTVLSGT FQEVKIYLN 
QVSQESING ETRKSVSPR RPSASPRRL LRRHRSSGL 
LSSVTTRRH NRK
      CDS sequence
      • >TC031792 RA
        atgtcgaag cctgattta aaatccgtt attgaatta 
aagaaggaa gttgcgcgt atggaagaa gttgccaac 
tttctccga attgaaaac ttcgaatat gccctgaag 
atcaatcga ttggaaaat atcatcaca agtatacaa 
gccgtaacc aaggatcac cctgcaaag cttgtagaa 
ctatctgat ggtttactc aaaattatt cacacttgc 
aacgaagtg aatccatcg acagcccca gctccagaa 
accaaagag acgactccc aaggaccag agtcaaatc 
tccgtgaag gtaactcca gcgtcgcca tcaacatca 
agaccaagc aaagcccat gtggtaaag ccccatatg 
gtaaatgga cacatacta tacattccc accataaat 
ctgacacga ataagtgaa aacaattcg ttacaaagg 
gaaaataac tccttggtt gaggattcg actttgaga 
gggactaca gcagcatcg acttcgtct caaacgatt 
gagactgaa aataattca acacgtgag ttccatagt 
ggcagtgtt tcgcacttg gagaatgtt tctcaagcg 
tcgacgtcg agatcaccg acacattcg actgtactt 
tcaggaacg tttcaagaa gtaaaaata tatcttaac 
caagtgagc caagaaagt attaacgga gaaacgcga 
aaatctgtt tctccacga cgaccatct gcttctccg 
agacgacta ttacgtcga cacaggtcg agtggctta 
ttgagcagt gtcactaca agaagacac aaccgaaaa 
taa
      mRNA sequence
      • >TC031792 RA
        gctgaatta taatataac ctaaaatta gcacaaacg 
tcaatttct actaaaaac ttattaaaa agtgtttgt 
ttgagtgga ttaatgatg tcgaagcct gatttaaaa 
tccgttatt gaattaaag aaggaagtt gcgcgtatg 
gaagaagtt gccaacttt ctccgaatt gaaaacttc 
gaatatgcc ctgaagatc aatcgattg gaaaatatc 
atcacaagt atacaagcc gtaaccaag gatcaccct 
gcaaagctt gtagaacta tctgatggt ttactcaaa 
attattcac acttgcaac gaagtgaat ccatcgaca 
gccccagct ccagaaacc aaagagacg actcccaag 
gaccagagt caaatctcc gtgaaggta actccagcg 
tcgccatca acatcaaga ccaagcaaa gcccatgtg 
gtaaagccc catatggta aatggacac atactatac 
attcccacc ataaatctg acacgaata agtgaaaac 
aattcgtta caaagggaa aataactcc ttggttgag 
gattcgact ttgagaggg actacagca gcatcgact 
tcgtctcaa acgattgag actgaaaat aattcaaca 
cgtgagttc catagtggc agtgtttcg cacttggag 
aatgtttct caagcgtcg acgtcgaga tcaccgaca 
cattcgact gtactttca ggaacgttt caagaagta 
aaaatatat cttaaccaa gtgagccaa gaaagtatt 
aacggagaa acgcgaaaa tctgtttct ccacgacga 
ccatctgct tctccgaga cgactatta cgtcgacac 
aggtcgagt ggcttattg agcagtgtc actacaaga 
agacacaac cgaaaataa atttgttat aatataatt 
aattcatta taattttct gggcccagt ttatttatt 
ataggtttt ttgcatact ataatgggt cggcaacgt 
ttgtgacaa tttcaatta tttgaatat aattccttt 
caagct

      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