Status
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Gene information
General information
TC004953 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_007417.3: 4997298..5000022
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
    TC004953
    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
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    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09599

    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: 40.0% (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: 3 (9 dpi)
    Days post injection


    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection


    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    7

    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
    • >TC004953 RA
      MEFILEQNE IREDYKVKP KASPVIIIW RKKPTKGLL 
      TLFVFAIVV PVLVYFFIF DKGTFPVED ANTCSVDKK 
      YRITCGITD INATYDYCT NIKCCFDNA TRLCYHYLP 
      SKYFYYNKG GNSQTYDRS LEKSPFGQD LTKEISLTI 
      NEIDENNVQ IILHDTAVT VDSNQVLDK NYKVNVSNN 
      PLFVEISRN TSGDILLTT ADGPLIVSG NFREWSFQL 
      TDQYLFGLG QVLIDLDEN STLTKVIYA NNNDHNTLP 
      LFMAHKNGQ YHGLVVRHS GLLEITILP SKLVSLKSL 
      EREKIVLEL SVGPTPHDV ITQQRKGKW GTIDMKTLG 
      VHICREGTV TTLKDILSD YSQEKSIDF PYESDCFHD 
      NLVTALRKE KSEQNIENV LEKIKSLTD SGHSFMLSV 
      PPHIVFGSA LYDNGTQLG IFYKSGNKT YKGQYLKNT 
      VVFPFFKHT SIDSFVQLL VEELKGYFK DTFPRDFIL 
      NNNWPKDDS FVFENYENF RFFSKEIID AMSYTLPWD 
      VSSENQSQI LDHNDYGAL QTQKFLGVL TESSVMTAA 
      HNFETTQPL IIQNVAISW VNFKKSITQ ILYNSIAGS 
      PMTSVPVCG STSDFDASA HEALCTRWY LMGATAPIF 
      RISSDLPRR DPTSLGPGA FGQAARRAI EVRYSLLYY 
      YNTVLNQDK EPLMRPMFY DFPTDNDTF PLVDQYMVG 
      RHLLVAHPT LPDRTQITI YLPKAVKVW YEFWGGEAF 
      GAWSNKTWV TLTLVDTDL VAFVKEGGI IPWVTDNQG 
      TKLVQLKVA LKCDSDNNC DAEGSMMVG LESLWRPW
    CDS sequence
    • >TC004953 RA
      atggagttt attcttgaa caaaacgaa attcgcgaa 
      gattacaaa gtgaaacca aaggcatca ccagtgata 
      ataatttgg cgaaagaaa cccactaaa ggtctccta 
      actcttttc gtttttgcc atcgtagtc ccggtcctt 
      gtttacttt tttatattc gataaagga acgtttcca 
      gtcgaagac gcaaacact tgctctgtt gacaaaaaa 
      tacaggata acgtgtggt ataacagac ataaatgca 
      acatacgat tactgcacc aatatcaag tgttgtttt 
      gataacgca actagactg tgttatcac tatttacca 
      tcgaagtac ttttattac aataaagga gggaattca 
      caaacgtac gacagaagt ttggaaaaa tcgcctttt 
      gggcaagat ttaaccaaa gaaatttcg ctaacaatc 
      aacgaaatt gatgaaaat aatgtccaa attattttg 
      cacgacact gctgtaaca gtagactca aatcaagtc 
      cttgataag aattacaaa gtcaatgtg agcaataat 
      cccttgttt gtggaaatt tcgagaaac acttccgga 
      gatatcctt ctaacaaca gcagatggc cctttgata 
      gtatcagga aacttcaga gaatggtcg tttcaactc 
      acagatcag tacttattc ggcttgggc caagtcctg 
      atcgatttg gacgaaaac tcaactctc actaaagtc 
      atttatgct aacaacaac gaccacaac actttacca 
      ttgttcatg gcccacaaa aatggacaa taccatggg 
      ttggtggta cggcacagt ggccttctc gagattacg 
      atactaccg tccaaatta gtcagtttg aaaagttta 
      gaacgggaa aaaattgtc ttggagcta agtgttggg 
      ccaacacca cacgatgtg ataacacag cagaggaaa 
      ggaaaatgg gggacaatt gacatgaaa acactcgga 
      gtccacatt tgcagggaa ggaactgtc actactctt 
      aaagacatt ctaagtgat tatagtcaa gagaaaagt 
      attgatttt ccatacgaa tctgactgt tttcacgat 
      aatttagtt acggccttg aggaaagaa aagtcggag 
      caaaatatt gaaaacgtg cttgaaaaa attaaaagt 
      ttgactgat agcgggcac agttttatg ctctcggtg 
      cccccacat attgttttc ggcagtgca ctctacgat 
      aatggaacc caattgggc attttttac aagagtggt 
      aataaaacg tacaaagga cagtacctc aaaaacacc 
      gttgtcttt ccttttttt aaacacaca tccattgat 
      tcgtttgtg caactactg gttgaagaa ctgaaaggt 
      tatttcaaa gacacgttc ccgcgtgac tttatcctg 
      aataacaat tggccaaaa gacgactct ttcgttttc 
      gaaaattac gaaaacttc cgtttcttt tcaaaagaa 
      ataatcgac gccatgtct tacactctt ccatgggac 
      gtttcgagt gaaaaccag tcacaaatt ttggaccat 
      aacgactat ggggccctt caaacccaa aaatttttg 
      ggtgtttta accgaaagt tccgtcatg accgcggca 
      cacaatttc gaaaccacc caacccctc ataatccaa 
      aacgtggct atttcttgg gtcaacttc aaaaaatcc 
      ataacccaa attttgtac aacagcatt gctggtagt 
      ccaatgacc agtgtcccg gtttgtggt tcgaccagt 
      gatttcgat gcttccgca cacgaggct ttgtgtacc 
      agatggtac ctcatgggt gccacggca cccattttc 
      cgcatttcg tccgatcta ccaagacgg gacccgacg 
      tctttgggt cctggggcg ttcggacag gcggcccga 
      agggccatt gaagttaga tacagtctg ctttattat 
      tacaacact gtgttaaac caggacaaa gagccgtta 
      atgaggcca atgttttac gattttccg accgataac 
      gacactttt cctttggtc gatcagtac atggtgggt 
      aggcacttg ctggtggca cacccgact ttgcctgac 
      cggacacaa attacgatt tatttaccc aaagcggtc 
      aaggtctgg tatgagttt tggggaggc gaagccttt 
      ggtgcttgg agcaacaag acctgggtt actttaact 
      ctggttgat actgatttg gttgcgttc gtaaaggaa 
      ggagggatt attccgtgg gttactgat aaccaaggc 
      actaaactg gtacaactg aaagtggcc ctaaagtgt 
      gatagtgat aacaactgt gatgctgaa ggttccatg 
      atggttgga ttagaatcg ttgtggaga ccttggtga
    mRNA sequence
    • >TC004953 RA
      aaatgtgag tgtttgcaa aatggagtt tattcttga 
      acaaaacga aattcgcga agattacaa agtgaaacc 
      aaaggcatc accagtgat aataatttg gcgaaagaa 
      acccactaa aggtctcct aactctttt cgtttttgc 
      catcgtagt cccggtcct tgtttactt ttttatatt 
      cgataaagg aacgtttcc agtcgaaga cgcaaacac 
      ttgctctgt tgacaaaaa atacaggat aacgtgtgg 
      tataacaga cataaatgc aacatacga ttactgcac 
      caatatcaa gtgttgttt tgataacgc aactagact 
      gtgttatca ctatttacc atcgaagta cttttatta 
      caataaagg agggaattc acaaacgta cgacagaag 
      tttggaaaa atcgccttt tgggcaaga tttaaccaa 
      agaaatttc gctaacaat caacgaaat tgatgaaaa 
      taatgtcca aattatttt gcacgacac tgctgtaac 
      agtagactc aaatcaagt ccttgataa gaattacaa 
      agtcaatgt gagcaataa tcccttgtt tgtggaaat 
      ttcgagaaa cacttccgg agatatcct tctaacaac 
      agcagatgg ccctttgat agtatcagg aaacttcag 
      agaatggtc gtttcaact cacagatca gtacttatt 
      cggcttggg ccaagtcct gatcgattt ggacgaaaa 
      ctcaactct cactaaagt catttatgc taacaacaa 
      cgaccacaa cactttacc attgttcat ggcccacaa 
      aaatggaca ataccatgg gttggtggt acggcacag 
      tggccttct cgagattac gatactacc gtccaaatt 
      agtcagttt gaaaagttt agaacggga aaaaattgt 
      cttggagct aagtgttgg gccaacacc acacgatgt 
      gataacaca gcagaggaa aggaaaatg ggggacaat 
      tgacatgaa aacactcgg agtccacat ttgcaggga 
      aggaactgt cactactct taaagacat tctaagtga 
      ttatagtca agagaaaag tattgattt tccatacga 
      atctgactg ttttcacga taatttagt tacggcctt 
      gaggaaaga aaagtcgga gcaaaatat tgaaaacgt 
      gcttgaaaa aattaaaag tttgactga tagcgggca 
      cagttttat gctctcggt gcccccaca tattgtttt 
      cggcagtgc actctacga taatggaac ccaattggg 
      catttttta caagagtgg taataaaac gtacaaagg 
      acagtacct caaaaacac cgttgtctt tcctttttt 
      taaacacac atccattga ttcgtttgt gcaactact 
      ggttgaaga actgaaagg ttatttcaa agacacgtt 
      cccgcgtga ctttatcct gaataacaa ttggccaaa 
      agacgactc tttcgtttt cgaaaatta cgaaaactt 
      ccgtttctt ttcaaaaga aataatcga cgccatgtc 
      ttacactct tccatggga cgtttcgag tgaaaacca 
      gtcacaaat tttggacca taacgacta tggggccct 
      tcaaaccca aaaattttt gggtgtttt aaccgaaag 
      ttccgtcat gaccgcggc acacaattt cgaaaccac 
      ccaacccct cataatcca aaacgtggc tatttcttg 
      ggtcaactt caaaaaatc cataaccca aattttgta 
      caacagcat tgctggtag tccaatgac cagtgtccc 
      ggtttgtgg ttcgaccag tgatttcga tgcttccgc 
      acacgaggc tttgtgtac cagatggta cctcatggg 
      tgccacggc acccatttt ccgcatttc gtccgatct 
      accaagacg ggacccgac gtctttggg tcctggggc 
      gttcggaca ggcggcccg aagggccat tgaagttag 
      atacagtct gctttatta ttacaacac tgtgttaaa 
      ccaggacaa agagccgtt aatgaggcc aatgtttta 
      cgattttcc gaccgataa cgacacttt tcctttggt 
      cgatcagta catggtggg taggcactt gctggtggc 
      acacccgac tttgcctga ccggacaca aattacgat 
      ttatttacc caaagcggt caaggtctg gtatgagtt 
      ttggggagg cgaagcctt tggtgcttg gagcaacaa 
      gacctgggt tactttaac tctggttga tactgattt 
      ggttgcgtt cgtaaagga aggagggat tattccgtg 
      ggttactga taaccaagg cactaaact ggtacaact 
      gaaagtggc cctaaagtg tgatagtga taacaactg 
      tgatgctga aggttccat gatggttgg attagaatc 
      gttgtggag accttggtg ataaaaaat tcgttttga 
      ctgaaataa tcatattcc aaatgggca ctaaagcga 
      gatatgtta agctgactg aaggaaaga atttaaacg 
      aaattactg acacttgga c
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY