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Gene information
General information
TC008997 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: 8979505..8982105
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
    TC008997
    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_01453

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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
    egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    cuticle remnants without visible segmentation, differentiation or axis - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen mostly remaining - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larva mostly 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%
    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: 80.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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


    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection



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


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008997 RA
      MFSANVIKD GDFTKTVYT LIKDNRFPD AIKILHGIP 
      ESNSTRAGL SLLAYCYFY IQDFNNAAS YYEELTQMY 
      PENNDYKLY YAQSLYQAC LYDESFQVT KKIVEDPEY 
      KGQVTKLQA AIKYSQEDV LSAKNLVNA CPNEDPDKE 
      VNLGCLLYK DENYEEALA KFLTALQNQ GFKPYLGYN 
      IALCYYRLK EYGPALKYC ADIIERGIR DHPELSIGM 
      QTEGIEVRS VGNTFTLHE TALTEAFNL KAAIEYQLK 
      NMDAAREAL TDMPPRAEY ELDAVTLHN QALMNFEQN 
      PTEGFEKLQ FLLQQNPFP PETFANLLL LYCQHEYYD 
      LAADILAEN ADLTYKYLT TYLYDFLDA IITQQTSPS 
      EAYQKLDEL ASRHTELLR KLTKQVQEH RNRNDTEMV 
      KKTVMEYEE CLDRYIPVL MAQAKIYWD LENYQQVEK 
      IFRKSVEFC NDNDIWRLN VAHVLFMQE NKFKEATGF 
      YEPLVKKSY SEILNVNPI VLANLCVSY IMTSQNEEA 
      EELMRKIEK EEDQMAIEE PEKKYFHHC IVNLVIGTL 
      YCSKGNYEF GISRVMKSL EPYRKLGTD TWYYTKRCF 
      LSLIENVAK HMIVLRDSV IQECISFLE NCELHGKTI 
      RTTAYPSLS DENETPNGK ETVAYEARK IKCLLLKLQ 
      NY
    CDS sequence
    • >TC008997 RA
      atgttttcc gccaacgtt atcaaagac ggggatttt 
      acgaaaact gtctacact ctgataaaa gacaaccgc 
      tttcctgat gctatcaaa atcctgcat ggtatccct 
      gagtcgaat tcaaccaga gccggactc tcattgttg 
      gcctattgt tacttctac attcaagac tttaataat 
      gcggccagt tattacgaa gagcttaca caaatgtat 
      ccggaaaat aacgattac aagttgtat tatgcgcaa 
      tcattgtat caagcatgt ctctacgac gagtcattc 
      caagtaacg aaaaagatt gtcgaagat ccggaatat 
      aaaggacaa gttaccaaa ctccaagct gctattaag 
      tacagtcag gaggacgtt ttatcggcg aagaattta 
      gtaaatgcg tgcccgaac gaagatcca gacaaggaa 
      gtgaatctc gggtgtttg ctctataag gacgaaaat 
      tacgaagaa gccctagct aaatttctc acggcgttg 
      caaaaccag ggcttcaaa ccctatctg ggctataac 
      atcgctttg tgttattac aggttgaaa gaatacggc 
      ccggcactc aaatattgc gccgatata atcgaacgc 
      gggatacga gaccaccct gaactaagc atcggcatg 
      caaacagaa ggcattgaa gtgcgttcg gtgggtaac 
      acgtttacc ttacatgaa acagccctg actgaggct 
      tttaatctc aaagctgcg atcgaatat cagctcaaa 
      aatatggac gcagctcgt gaagctcta actgacatg 
      cccccgagg gccgagtac gaactcgac gctgtgact 
      ttacacaac caagctctg atgaatttc gagcaaaac 
      ccgactgaa ggtttcgaa aaattgcag tttctgctt 
      cagcaaaac cccttcccg cctgagact ttcgctaat 
      cttttatta ctctattgt caacacgaa tactacgat 
      ttggcagcc gatattttg gccgaaaac gcagacctg 
      acctacaaa tatttaact acttatttg tacgacttc 
      cttgatgcg attatcacg caacaaaca tcacctagt 
      gaagcgtat caaaaattg gacgaactg gcgagtcgt 
      catacagaa ctattgaga aaattgaca aaacaggtg 
      caagaacac cgcaaccgg aatgataca gagatggtc 
      aaaaaaaca gtaatggag tatgaggaa tgtctggac 
      cggtatata ccggttttg atggcacaa gcgaagata 
      tactgggac ttggagaat taccaacaa gttgagaaa 
      atattccgg aaaagtgtt gagttttgt aatgataat 
      gatatctgg aggttgaac gttgcacat gttctcttc 
      atgcaggag aataaattc aaagaagcg accgggttt 
      tatgaacct ttggtcaaa aagagttat tcggagatt 
      ttgaatgtg aacccaatt gtacttgca aatttgtgc 
      gtttcgtac ataatgacc tcacaaaat gaggaagcc 
      gaagaactg atgcgaaaa attgagaaa gaggaggat 
      caaatggcg attgaagaa cccgaaaag aagtatttc 
      caccactgt attgttaac cttgttatt ggtactctg 
      tattgttca aaaggaaat tacgaattc ggaatatca 
      cgggttatg aagtcgcta gaaccgtat cgaaagttg 
      ggtaccgat acttggtac tacaccaaa cgatgtttc 
      ctcagtctt attgaaaac gtagcgaaa catatgata 
      gtattgcga gactctgtt attcaagag tgtatttca 
      tttttggaa aactgcgag ttacatggc aagacaatt 
      cgaacaact gcctaccca agtctatct gacgaaaac 
      gaaacacct aacggtaaa gaaactgtg gcttatgaa 
      gctcgtaaa attaagtgc ctacttcta aaactacag 
      aactattag
    mRNA sequence
    • >TC008997 RA
      catcaaatc atttttctc acaccatca tatttttgt 
      agccatggc aacattttg tatacaaat tcttgccag 
      ctagagaaa tgttttccg ccaacgtta tcaaagacg 
      gggatttta cgaaaactg tctacactc tgataaaag 
      acaaccgct ttcctgatg ctatcaaaa tcctgcatg 
      gtatccctg agtcgaatt caaccagag ccggactct 
      cattgttgg cctattgtt acttctaca ttcaagact 
      ttaataatg cggccagtt attacgaag agcttacac 
      aaatgtatc cggaaaata acgattaca agttgtatt 
      atgcgcaat cattgtatc aagcatgtc tctacgacg 
      agtcattcc aagtaacga aaaagattg tcgaagatc 
      cggaatata aaggacaag ttaccaaac tccaagctg 
      ctattaagt acagtcagg aggacgttt tatcggcga 
      agaatttag taaatgcgt gcccgaacg aagatccag 
      acaaggaag tgaatctcg ggtgtttgc tctataagg 
      acgaaaatt acgaagaag ccctagcta aatttctca 
      cggcgttgc aaaaccagg gcttcaaac cctatctgg 
      gctataaca tcgctttgt gttattaca ggttgaaag 
      aatacggcc cggcactca aatattgcg ccgatataa 
      tcgaacgcg ggatacgag accaccctg aactaagca 
      tcggcatgc aaacagaag gcattgaag tgcgttcgg 
      tgggtaaca cgtttacct tacatgaaa cagccctga 
      ctgaggctt ttaatctca aagctgcga tcgaatatc 
      agctcaaaa atatggacg cagctcgtg aagctctaa 
      ctgacatgc ccccgaggg ccgagtacg aactcgacg 
      ctgtgactt tacacaacc aagctctga tgaatttcg 
      agcaaaacc cgactgaag gtttcgaaa aattgcagt 
      ttctgcttc agcaaaacc ccttcccgc ctgagactt 
      tcgctaatc ttttattac tctattgtc aacacgaat 
      actacgatt tggcagccg atattttgg ccgaaaacg 
      cagacctga cctacaaat atttaacta cttatttgt 
      acgacttcc ttgatgcga ttatcacgc aacaaacat 
      cacctagtg aagcgtatc aaaaattgg acgaactgg 
      cgagtcgtc atacagaac tattgagaa aattgacaa 
      aacaggtgc aagaacacc gcaaccgga atgatacag 
      agatggtca aaaaaacag taatggagt atgaggaat 
      gtctggacc ggtatatac cggttttga tggcacaag 
      cgaagatat actgggact tggagaatt accaacaag 
      ttgagaaaa tattccgga aaagtgttg agttttgta 
      atgataatg atatctgga ggttgaacg ttgcacatg 
      ttctcttca tgcaggaga ataaattca aagaagcga 
      ccgggtttt atgaacctt tggtcaaaa agagttatt 
      cggagattt tgaatgtga acccaattg tacttgcaa 
      atttgtgcg tttcgtaca taatgacct cacaaaatg 
      aggaagccg aagaactga tgcgaaaaa ttgagaaag 
      aggaggatc aaatggcga ttgaagaac ccgaaaaga 
      agtatttcc accactgta ttgttaacc ttgttattg 
      gtactctgt attgttcaa aaggaaatt acgaattcg 
      gaatatcac gggttatga agtcgctag aaccgtatc 
      gaaagttgg gtaccgata cttggtact acaccaaac 
      gatgtttcc tcagtctta ttgaaaacg tagcgaaac 
      atatgatag tattgcgag actctgtta ttcaagagt 
      gtatttcat ttttggaaa actgcgagt tacatggca 
      agacaattc gaacaactg cctacccaa gtctatctg 
      acgaaaacg aaacaccta acggtaaag aaactgtgg 
      cttatgaag ctcgtaaaa ttaagtgcc tacttctaa 
      aactacaga actattagt aaaaaaaat cacatataa 
      actgtttat tacactaag gatataaaa caactagaa 
      atcactgag tagtaacaa gtgttaata aatttgtct 
      agtataaaa tatataaca aagaaatta aaaagcact 
      aaagcttga ataaatcac taaaaatta ctggagaga 
      gctttacgc aataaaata tcacggcgg tg
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY