Status
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Gene information
General information
TC009906 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_007422.5: 12229486..12235774
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
    TC009906
    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
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    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_04720

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
    metathorax not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    mesothorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    abdomen segment mostly not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen complete not present - Penetrance (percentage of animals/eggs on slide): more than 80%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection


    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009906 RA
      MRYMVICAL ILTVGGRNL KNAEFNGLP EEKLLDALC 
      QSFRKQNSS SCGNGNRCD LWSEKFPIQ ELKSQESLL 
      NSIQIRCIE SNMISFYLE ATDDFAYFL EVSNKNFKT 
      YSNVTTCSY YSLDDLSED TFYDIRLWG VSFSKKQIL 
      RSDDLAVKT PSKSLVPTP VTHIFLQNL ILKENTYDA 
      VIKWSPNED YSCEYNLVW IKEESIYEE RISVVSGLH 
      EATLTDLAL GENYTVQIM AKSESSPFE SLKKSLNFR 
      TPSCLETFH TLEKCRPDP PQNLVINES IIDLSQQTY 
      NVHLMWSKP DLIPNYYIA HFINIDPEN HNKTEIFLN 
      ITGDKTNSV FEHVKLGSL YHISFMACS SAGCSQKVA 
      EERHKTDIN IATVPSEQQ WGILVLIIA PLIATLIAT 
      VTVNYYRHK QKRRDERER YFKGLDEEK LPESGENIE 
      INLIKPDIS DQWELDPLK LSFQGVIGE GAFGIVRRA 
      FLDLKESNK TQVAVKMLK ESPTSEEIR QFTQEINIM 
      KSVRQHPYI VSLIGCVTE GRAEGPLLV VEYCSRGDL 
      QTYLRTAWD KFTNMQQQF AYIDESSNS SNYFANKTY 
      DFHNMSFEN DFIIQPKHL LSIARQVAL GMEHLAKTR 
      VVHRDLAAR NVLVCENHT VKVSDFGLS RDVYQDNVY 
      CKNGGGKLP VRWMALESL THQRYTTYS DVWSFGVLL 
      WEIVTLGGT PYVGVHSSE LLDFLKSGN RLARPTNCS 
      PDLYAVMLN CWKECPKNR PTFTELSKS LEGLLENVA 
      QYLQIENVE QTLNHEIKK VIPGRITQK SCSTERYVT 
      PVNTLVRGI SN
    CDS sequence
    • >TC009906 RA
      atgaggtat atggtgatt tgtgcgtta attttaacg 
      gtaggtgga cggaattta aaaaatgcc gaatttaat 
      gggttgccc gaggaaaaa ctattagac gcactgtgc 
      caaagtttt cgcaagcaa aattcttct tcctgtggt 
      aatggtaac agatgcgac ttgtggagc gagaagttt 
      cctatacaa gaactgaag tcacaggaa tcgttatta 
      aactcgata caaattaga tgcattgaa agtaatatg 
      atcagtttt tatctggaa gcgacagat gactttgct 
      tatttcctg gaagtttca aataagaac tttaaaact 
      tatagcaat gtgaccacg tgtagctac tactctctg 
      gatgattta agcgaagac acgttttac gatattcga 
      ctgtggggg gtctcattt tcgaaaaaa caaatttta 
      cgcagcgac gatctcgct gtcaaaaca ccaagcaaa 
      agtttagtc ccaacacca gtcacgcat atttttctt 
      caaaatcta attttgaaa gaaaacaca tacgatgcc 
      gtaattaaa tggagtcca aatgaagat tattcgtgc 
      gaatataat ctcgtgtgg attaaggaa gaatccatt 
      tatgaggaa aggataagc gttgtttca ggtttgcac 
      gaagcgact ttgaccgat ctggcttta ggggaaaac 
      tacactgtg caaattatg gcgaaatcg gaaagctcg 
      ccctttgag agtttgaag aaatcgctt aatttccgc 
      accccttct tgcttggaa actttccat actttggaa 
      aaatgccgc cctgatccc ccacaaaac ctggtcatt 
      aacgaaagt atcatcgat ttatcccag caaacatac 
      aacgtccac ttgatgtgg tcaaagcca gatttaata 
      cccaactat tacatcgcc cattttatt aacattgac 
      ccggaaaat cacaacaaa accgagatt tttttaaac 
      ataactggg gacaagaca aattcagtt tttgaacac 
      gtgaagttg ggttccttg taccacatc tccttcatg 
      gcctgttcg tcggccggg tgcagtcaa aaagtggcc 
      gaagagcgg cacaaaacc gacataaat atcgcaaca 
      gttccctcg gagcagcag tgggggatt ttggtccta 
      attatcgca cctctaatt gcaactttg attgcgaca 
      gtgactgtt aattattac cgacataag cagaagcga 
      cgagacgaa agagagcgc tatttcaag ggtcttgac 
      gaggagaag cttccagag tcgggggaa aatattgaa 
      atcaatttg atcaaaccc gacatatct gatcagtgg 
      gagctcgat ccccttaaa ctttccttt cagggcgtc 
      atcggagag ggagctttc gggattgtt cggcgagct 
      ttcctagac ttgaaggaa agcaataag acacaagtt 
      gccgtcaaa atgctgaaa gagtcaccc acttcggag 
      gaaatacga cagttcact caagaaatc aatataatg 
      aagtcggtg agacaacat ccatatatt gtttccttg 
      atcggctgt gtgacggaa ggacgagcc gaagggcca 
      ctgcttgtg gtcgagtac tgctcaagg ggggacctg 
      cagacttac ctcaggacg gcctgggac aaattcacc 
      aacatgcag caacaattt gcatacatt gacgaaagc 
      tcaaacagt tcgaactat ttcgctaac aaaacttac 
      gacttccac aatatgagc ttcgagaac gattttata 
      atccagccc aagcacctt ttatcaata gcgcgccaa 
      gtggcgctc gggatggaa catctcgcc aaaactcgt 
      gtcgtgcac cgcgatctg gcggcacgt aacgttcta 
      gtttgcgaa aatcacaca gtgaaagtg tccgacttt 
      ggtctgagt cgcgacgtt taccaggac aacgtttac 
      tgcaaaaac ggcggcgga aaattgccg gtcaggtgg 
      atggcccta gaatcccta acgcatcag aggtacacc 
      acgtatagc gacgtctgg tccttcggc gttttacta 
      tgggagata gtaacgctc gggggaacc ccctacgtg 
      ggtgtacac tcgtccgaa ctgctggat ttcctcaag 
      agcggaaat cgcttggcg cggcccacg aattgcagc 
      cccgacttg tacgccgtc atgttgaat tgttggaag 
      gaatgtccg aaaaacagg ccgactttt accgaactg 
      agcaaatct ttggagggt ttgttggaa aacgtggct 
      caatatctt caaattgaa aatgtcgaa cagaccctc 
      aatcacgag attaaaaaa gtgattcct gggagaata 
      acccaaaag tcgtgttcc accgaacgg tatgttaca 
      cccgttaat actctagtc agaggtatt agcaactaa
    mRNA sequence
    • >TC009906 RA
      tctatcgta aatacctac ctattcatc ccttctcaa 
      atcgtctac ctccattcg gcgtcgacg tgccactgt 
      gttagaatc attatttga aaagttgtt cagcgcgct 
      attgctttg atgtcgcta cttcgcaca tttttcgcc 
      aatataaaa acagttcat attttaaaa tgaggtata 
      tggtgattt gtgcgttaa ttttaacgg taggtggac 
      ggaatttaa aaaatgccg aatttaatg ggttgcccg 
      aggaaaaac tattagacg cactgtgcc aaagttttc 
      gcaagcaaa attcttctt cctgtggta atggtaaca 
      gatgcgact tgtggagcg agaagtttc ctatacaag 
      aactgaagt cacaggaat cgttattaa actcgatac 
      aaattagat gcattgaaa gtaatatga tcagttttt 
      atctggaag cgacagatg actttgctt atttcctgg 
      aagtttcaa ataagaact ttaaaactt atagcaatg 
      tgaccacgt gtagctact actctctgg atgatttaa 
      gcgaagaca cgttttacg atattcgac tgtgggggg 
      tctcatttt cgaaaaaac aaattttac gcagcgacg 
      atctcgctg tcaaaacac caagcaaaa gtttagtcc 
      caacaccag tcacgcata tttttcttc aaaatctaa 
      ttttgaaag aaaacacat acgatgccg taattaaat 
      ggagtccaa atgaagatt attcgtgcg aatataatc 
      tcgtgtgga ttaaggaag aatccattt atgaggaaa 
      ggataagcg ttgtttcag gtttgcacg aagcgactt 
      tgaccgatc tggctttag gggaaaact acactgtgc 
      aaattatgg cgaaatcgg aaagctcgc cctttgaga 
      gtttgaaga aatcgctta atttccgca ccccttctt 
      gcttggaaa ctttccata ctttggaaa aatgccgcc 
      ctgatcccc cacaaaacc tggtcatta acgaaagta 
      tcatcgatt tatcccagc aaacataca acgtccact 
      tgatgtggt caaagccag atttaatac ccaactatt 
      acatcgccc attttatta acattgacc cggaaaatc 
      acaacaaaa ccgagattt ttttaaaca taactgggg 
      acaagacaa attcagttt ttgaacacg tgaagttgg 
      gttccttgt accacatct ccttcatgg cctgttcgt 
      cggccgggt gcagtcaaa aagtggccg aagagcggc 
      acaaaaccg acataaata tcgcaacag ttccctcgg 
      agcagcagt gggggattt tggtcctaa ttatcgcac 
      ctctaattg caactttga ttgcgacag tgactgtta 
      attattacc gacataagc agaagcgac gagacgaaa 
      gagagcgct atttcaagg gtcttgacg aggagaagc 
      ttccagagt cgggggaaa atattgaaa tcaatttga 
      tcaaacccg acatatctg atcagtggg agctcgatc 
      cccttaaac tttcctttc agggcgtca tcggagagg 
      gagctttcg ggattgttc ggcgagctt tcctagact 
      tgaaggaaa gcaataaga cacaagttg ccgtcaaaa 
      tgctgaaag agtcaccca cttcggagg aaatacgac 
      agttcactc aagaaatca atataatga agtcggtga 
      gacaacatc catatattg tttccttga tcggctgtg 
      tgacggaag gacgagccg aagggccac tgcttgtgg 
      tcgagtact gctcaaggg gggacctgc agacttacc 
      tcaggacgg cctgggaca aattcacca acatgcagc 
      aacaatttg catacattg acgaaagct caaacagtt 
      cgaactatt tcgctaaca aaacttacg acttccaca 
      atatgagct tcgagaacg attttataa tccagccca 
      agcaccttt tatcaatag cgcgccaag tggcgctcg 
      ggatggaac atctcgcca aaactcgtg tcgtgcacc 
      gcgatctgg cggcacgta acgttctag tttgcgaaa 
      atcacacag tgaaagtgt ccgactttg gtctgagtc 
      gcgacgttt accaggaca acgtttact gcaaaaacg 
      gcggcggaa aattgccgg tcaggtgga tggccctag 
      aatccctaa cgcatcaga ggtacacca cgtatagcg 
      acgtctggt ccttcggcg ttttactat gggagatag 
      taacgctcg ggggaaccc cctacgtgg gtgtacact 
      cgtccgaac tgctggatt tcctcaaga gcggaaatc 
      gcttggcgc ggcccacga attgcagcc ccgacttgt 
      acgccgtca tgttgaatt gttggaagg aatgtccga 
      aaaacaggc cgactttta ccgaactga gcaaatctt 
      tggagggtt tgttggaaa acgtggctc aatatcttc 
      aaattgaaa atgtcgaac agaccctca atcacgaga 
      ttaaaaaag tgattcctg ggagaataa cccaaaagt 
      cgtgttcca ccgaacggt atgttacac ccgttaata 
      ctctagtca gaggtatta gcaactaag tgtggtgag 
      actgtaaat aattatcgt tgtttcgca aatgtacct 
      gcccccaaa gttcaatga ttttgtgat cgaatgaaa 
      catatttac gtaattagt gttaggaaa aatgtgact 
      gatgtaata tagctgtga gttaaatta tagtttgat 
      atgcgttta agacaatgt tatgcacta ttgtgcata 
      tttttatgg tattttttg tattatgtt caacgtgac 
      tgtatctct gtaataaat aaatgtttt taaatgat
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY