Status
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Gene information
General information
TC004661 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_007416.3: 1126687..1131777
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
    TC004661
    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
    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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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00747

    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: 2 (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: < 20
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004661 RA
      MKFTISCIF LCVCAQTLA FEAPIHPLY TVDATKTFG 
      DSSEYDTCD LTPPECDPQ YKYRSFDGS CNNLKHPVW 
      GMVKSAFAR VFPPRYSDG KELPPVASD GGELPNARH 
      IVTSVFDDK DVPDTVSLI VAQWAQFIA HDFAVGVPK 
      TGVDDCCAS DDPLVCLSI PIPEDDAFY SQYNKTCLS 
      MTRTQTTLT GDCDPQGPK QQINGVSHG LDGSQIYGS 
      DPETASSLR EHKGGRMLV RQKADGRCF LPSKGSCYN 
      SDVCYVAGE SRVNQNTQL TIMHTMLVR EHNRIADIL 
      ASLHPEWDD ETVYQETRS IVVAEYLHI TYNHFLPNI 
      LNENFMIRN ELRSRNQGY HKYDEEIPN IVLISFSNP 
      AFRIFHSGL QGVIGLYNY HLDPTSHIN LTDYMNSPG 
      ILEEENHFD ELILGVITQ PMQTIDTFY TSQIDGKLF 
      HFGKPYGAD LNALDIQRA RDHAVPGYP TVLYGCRGI 
      EVRDFDDLA AIWPEKHIK TVRNIYKSV DDIDLFVGV 
      NFENKPEGH RMSPVLECL IGEQFYRWK NGDRFWYEV 
      ENQPHSFTP AQLDEIRQA TLSRLVCDT SDYIVNITV 
      NAWKPPGDN NPIVPCENV PSIDLSKWL
    CDS sequence
    • >TC004661 RA
      atgaagttc accatctcg tgcattttt ctgtgtgtt 
      tgcgcccaa actcttgca tttgaagcc ccaatccac 
      cctttgtac accgtcgat gcgaccaaa accttcggt 
      gactcaagc gaatacgac acttgcgat ttaacccct 
      ccggagtgt gacccccag tataaatac cgctctttc 
      gacggctca tgcaataat ctgaaacac ccggtatgg 
      ggaatggtg aaatcagct tttgcccgt gtttttccc 
      ccgcgatat agtgacggg aaggagtta cctcctgtt 
      gcaagtgac ggaggagag ttgcctaac gctagacat 
      atcgtcact tctgttttt gacgacaag gacgtgccg 
      gacacagtg tcgctaatt gtagcccaa tgggcacaa 
      ttcattgcc catgacttt gccgtcgga gtccccaaa 
      accggagtt gatgattgt tgcgcgtcg gatgatcct 
      ctcgtttgc ttatctatt ccgatacct gaagacgac 
      gctttctac tcgcaatat aacaaaact tgtttaagt 
      atgacacgg actcagacg actttgacg ggggattgc 
      gacccccaa gggccgaaa caacaaatt aatggagtt 
      agtcatggg cttgatggt tcccaaatt tatggttcc 
      gaccccgaa actgcctcc tctttgcgg gaacataaa 
      ggtggtcgg atgttggta cgacaaaaa gccgatggt 
      cgctgtttt ttaccatcc aaagggtcg tgctataat 
      tcggatgtt tgctatgtt gcaggagag tctcgtgtc 
      aatcaaaac actcaattg acaatcatg catactatg 
      ctggtgagg gaacataac agaattgct gatattttg 
      gccagtctt cacccggaa tgggatgat gaaactgtc 
      tatcaggaa actcgaagc attgtcgta gctgaatac 
      ctccacatc acctataac cacttcctg ccgaatata 
      ttaaatgag aatttcatg attagaaac gaactcagg 
      tcgagaaat caaggatat cacaaatat gacgaagaa 
      attcccaat attgttctc ataagtttc agtaatccc 
      gcctttagg attttccat tccggtcta cagggagtt 
      ataggtctg tacaactac catttggac ccaacctcg 
      cacattaat ctaacggat tacatgaac tcgcccgga 
      attttggaa gaagagaac cacttcgac gaattaatc 
      ttgggcgta atcacccaa cccatgcaa acgattgac 
      accttctac acgtcccaa atcgacggc aagttgttc 
      catttcggc aaaccgtac ggtgctgac ttgaacgct 
      ctggacatc cagagagca agagaccat gcagtcccc 
      ggttaccct accgttctg tacggctgt aggggaatc 
      gaagtgagg gattttgac gacttggcc gcaatttgg 
      cccgagaag cacatcaaa accgtgcga aatatctac 
      aagtcggtc gacgacatc gatctgttc gttggcgtt 
      aactttgag aataagcca gaagggcac agaatgagc 
      ccggtcttg gagtgtctg atcggggaa cagttctac 
      aggtggaag aacggtgac aggttttgg tacgaggtt 
      gaaaaccaa ccccattcc ttcactcca gcacaactt 
      gatgaaata agacaggcg acgctgtcg cgcctcgtt 
      tgcgacacc agtgactat atcgtgaac ataacagta 
      aatgcgtgg aagccaccg ggggacaat aacccgatt 
      gttccatgc gaaaacgtc ccgtcgatt gatctctca 
      aaatggctt taa
    mRNA sequence
    • >TC004661 RA
      taattcaat gcacacttc agaaacgtt tttcaatag 
      tggcacggg cgatccttt gggaaattt tcgaatatt 
      cctcggggc cagtccagc cctgaacga ttccgagac 
      cacgaaagt agtacacgg actgttgca ccacttcag 
      cacctattt tgaccagca ttttaacaa aaatttcgg 
      acgcgtgtc ccggcgaaa caatcgatt aaacggcgg 
      ttgtgatta gggggatca acaatgcac aggaaataa 
      agcaagtgg aatgacacg ataaagctt cctttgcgt 
      ttgcgagcc tttagccag aaaccagta cgcacagtt 
      cgttgttta tgttattaa cgccggacc attcatcct 
      agctctaga cagatacag agcttaata aaagagtaa 
      gcaaccacc gtaaaggaa taaaacgtc accaagagg 
      aaaacgcgc agaggagag caatttcaa acatattgc 
      attatattg tggacggtg tagcatcgc acccgaggg 
      cccccggcg taattgatc gcggaattt gacaccaac 
      ttttaaatt ccggcctag aggaccggc ccagtaata 
      tgtttatta cgaattcaa tgaggggag ccggctcgg 
      tgcaatttt ttccgaaag tgccttgtt tctttttat 
      ataaatttc gtccagtgt gacagttac gtccacttg 
      acttgcctg tttcgtact aggctgggc ctgtggcag 
      cccgactta ataagaata ggttaacga caacggtag 
      tttcatgga aaatgaact tgaacgcgt ttcgtgtag 
      cagtttatt tcatgctta gagtttaca ataaagttg 
      agtgatgat gagaaatgc gaacatttt tctccgttg 
      tcaagtagc gcaaagccg ttcaggcgt tcacggtag 
      tgtataaag ccgcaatat atttcctat ttccaagat 
      gtttttcta tgtccttca aggattctc catcatatc 
      ataaatcag gattaacct tgtaaccac catggagac 
      acgcgacgc accccatgg cccagcaca cgaccacca 
      gctaaagtt taaacccac ctttacaaa agctgcaac 
      agcaacgca ctgctaaca caaccaaca ccaccagtt 
      attaccttt tttattttt ggaaagctc ttatctacg 
      tagatcagc tcgtacatt aaattattg gactcctca 
      agcaaaaat cagttaaaa atcactaaa accacacct 
      gtcgacaat tctcaagac gaatgtgtt aaaaacagc 
      taaaaacat cgttttcaa caagcgttc catgctgcg 
      caaaccctc gttcaaata aatacattg atgttggtg 
      tgttttcat aaaaatgga ctttgtagt ttctaaata 
      aaatgttaa aaatgtggt gtttggttc gtctataat 
      ttgagtcgg tgaaaattt ttactaata atatcgttg 
      cagttctgt gaaataaaa ccggattct cgagctgtt 
      tctcaattt gtattgggc gtaaggcga gtttaaaag 
      ggacaaaaa agtcgtacg gcttgaagt tatccccgc 
      ccactgtgc aaaaataat aattacaaa atggtgaca 
      aaaatagtc tagaattga ctccacttt tgtgtttaa 
      tatttctgc tgctacaat ttctgtagg cttacaagt 
      caatcggac ttaaagaac tttgaaaag cacggttga 
      aaatctaga gttttgttc gccttgaat ttgattgga 
      cgtgcggtt ttagcgcaa aaataaaga taagataca 
      tcttcaaag tataaaagg ggtcaaccc actttgcta 
      caaatcgca cgatgaagt tcaccatct cgtgcattt 
      ttctgtgtg tttgcgccc aaactcttg catttgaag 
      ccccaatcc accctttgt acaccgtcg atgcgacca 
      aaaccttcg gtgactcaa gcgaatacg acacttgcg 
      atttaaccc ctccggagt gtgaccccc agtataaat 
      accgctctt tcgacggct catgcaata atctgaaac 
      acccggtat ggggaatgg tgaaatcag cttttgccc 
      gtgtttttc ccccgcgat atagtgacg ggaaggagt 
      tacctcctg ttgcaagtg acggaggag agttgccta 
      acgctagac atatcgtca cttctgttt ttgacgaca 
      aggacgtgc cggacacag tgtcgctaa ttgtagccc 
      aatgggcac aattcattg cccatgact ttgccgtcg 
      gagtcccca aaaccggag ttgatgatt gttgcgcgt 
      cggatgatc ctctcgttt gcttatcta ttccgatac 
      ctgaagacg acgctttct actcgcaat ataacaaaa 
      cttgtttaa gtatgacac ggactcaga cgactttga 
      cgggggatt gcgaccccc aagggccga aacaacaaa 
      ttaatggag ttagtcatg ggcttgatg gttcccaaa 
      tttatggtt ccgaccccg aaactgcct cctctttgc 
      gggaacata aaggtggtc ggatgttgg tacgacaaa 
      aagccgatg gtcgctgtt ttttaccat ccaaagggt 
      cgtgctata attcggatg tttgctatg ttgcaggag 
      agtctcgtg tcaatcaaa acactcaat tgacaatca 
      tgcatacta tgctggtga gggaacata acagaattg 
      ctgatattt tggccagtc ttcacccgg aatgggatg 
      atgaaactg tctatcagg aaactcgaa gcattgtcg 
      tagctgaat acctccaca tcacctata accacttcc 
      tgccgaata tattaaatg agaatttca tgattagaa 
      acgaactca ggtcgagaa atcaaggat atcacaaat 
      atgacgaag aaattccca atattgttc tcataagtt 
      tcagtaatc ccgccttta ggattttcc attccggtc 
      tacagggag ttataggtc tgtacaact accatttgg 
      acccaacct cgcacatta atctaacgg attacatga 
      actcgcccg gaattttgg aagaagaga accacttcg 
      acgaattaa tcttgggcg taatcaccc aacccatgc 
      aaacgattg acaccttct acacgtccc aaatcgacg 
      gcaagttgt tccatttcg gcaaaccgt acggtgctg 
      acttgaacg ctctggaca tccagagag caagagacc 
      atgcagtcc ccggttacc ctaccgttc tgtacggct 
      gtaggggaa tcgaagtga gggattttg acgacttgg 
      ccgcaattt ggcccgaga agcacatca aaaccgtgc 
      gaaatatct acaagtcgg tcgacgaca tcgatctgt 
      tcgttggcg ttaactttg agaataagc cagaagggc 
      acagaatga gcccggtct tggagtgtc tgatcgggg 
      aacagttct acaggtgga agaacggtg acaggtttt 
      ggtacgagg ttgaaaacc aaccccatt ccttcactc 
      cagcacaac ttgatgaaa taagacagg cgacgctgt 
      cgcgcctcg tttgcgaca ccagtgact atatcgtga 
      acataacag taaatgcgt ggaagccac cgggggaca 
      ataacccga ttgttccat gcgaaaacg tcccgtcga 
      ttgatctct caaaatggc tttaatgta ttacacaat 
      tccaaaaat aaacaatac taaggaaa
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY