Status
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Gene information
General information
TC004625 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: 6323977..6328104
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
    TC004625
    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_03802

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    head capsule slightly size decreased - Penetrance (percentage of animals/eggs on slide): less than 30%

    legs slightly shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    abdomen mostly everted (inside-out) - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen dorsal bent - 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): 30% - 50%
    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: 40.0% (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: 4 (11 dpi)
    Days post injection


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004625 RA
      MASEFQNGP DQILPAEDS TTTSPDVPV RLRIPETGK 
      AIETTPPVS IPGLLKRTA TDFPDHPAL AYKAEGKWN 
      KITYKEYYE LVRTCAKAF IKLGLERHH AVCILGFNS 
      PEWFISDLA AIFAGGIAV GIYTTNSSE ACFHCANHS 
      RANIIVVQD QKQLEKILA IKSRLPHLK AIIQYEGTP 
      TSADVISWE DLLIIGRDQ EDEDLERVL KTIGVNECC 
      TLVYTSGTV GKPKAVMLS HDNLTWDAL SICERLDVK 
      KGEEVIVSY LPLSHVAAQ VTDIYIAMM YAVCIYFAD 
      ANALKGSLI NTLQEAQPT KFLGVPRVW EKMHEKMMQ 
      VAAQNGRVK KSLASWAKS QALHYHLNR IKGVNGSGW 
      GYCLASSLI FKKVKQALG LSRCTLFVS AAAPLAADI 
      KRYFLSIDM PIMEAFGMS EASGAHTMC NMGSFGLET 
      IGMALPGMK TKILNPEDG QGEICMNGR HVFMGYLGD 
      REKTDEAID SEGWLHSGD LGRIDENNF IYITGRLKE 
      LIITAGGEN IPPVPIEQL VKSELPHVS NVFLVGDKR 
      KFLSVLLTF KTDVDSDTA RPLDTLLPS VQDWLKSLG 
      CPAKTVTEV LEAGPHPKL LEALKESID RVNQQAVSN 
      AQRIQKLSI LPVDFSVAT GELGPTMKV KRNVVAAKY 
      ADIIEKMYA
    CDS sequence
    • >TC004625 RA
      atggccagc gaatttcaa aacggtcca gaccaaatc 
      ttaccagcg gaagactcc accacaacc agtccagat 
      gtccccgtg cgtctccgc atcccggaa actggaaaa 
      gcgattgaa accactcct ccggtctca atccccgga 
      cttctcaaa cgcaccgct accgacttt cccgaccat 
      cctgcacta gcatacaag gccgaggga aaatggaac 
      aagataaca tacaaggaa tactacgag ctagtgcga 
      acctgtgct aaagctttc atcaagctg ggcttagaa 
      agacaccat gccgtctgc atcctgggc tttaatagc 
      ccggagtgg ttcatttca gatcttgcc gcaattttc 
      gcaggggga atagctgtg gggatttat acaacgaat 
      tcgagcgaa gcgtgcttt cattgcgcg aatcacagt 
      cgagcgaat attattgtc gtacaggac caaaaacaa 
      ctcgaaaaa attcttgca ataaaatcg cgattaccg 
      cacctgaaa gccatcatt caatacgag ggcactccc 
      acaagtgcc gatgttatc agctgggaa gatttatta 
      ataatcggg agagatcag gaggacgaa gatctggaa 
      agagtcctt aaaactatt ggagttaac gaatgctgc 
      actctcgtc tatacgtct ggcaccgtg ggtaagccc 
      aaagccgtg atgctaagt cacgataac ttaacatgg 
      gacgcgctg tcgatctgt gagcgtctg gacgtgaaa 
      aagggcgaa gaagtgatt gttagttac ctccctttg 
      agccatgtg gcggcccaa gtcaccgat atttacata 
      gcaatgatg tatgcagtt tgtatttac ttcgccgac 
      gcgaatgct cttaaaggc tcgctgata aacactttg 
      caagaagcc cagccgacg aaattcctg ggtgttccg 
      cgagtctgg gaaaaaatg cacgaaaaa atgatgcaa 
      gtcgccgcg caaaatggt cgagttaag aagagtttg 
      gcttcgtgg gccaaaagc caggcttta cactaccac 
      cttaaccga attaaaggg gtcaatggg agcggttgg 
      ggttattgt ctagccagt tctctcatt tttaagaaa 
      gttaaacaa gccctgggc ttgagtcgg tgcacgttg 
      tttgtctca gcggctgca cctctcgct gccgacatc 
      aagcgatat tttctgagc atcgatatg ccaatcatg 
      gaggctttt ggcatgtcg gaggcgagt ggggcacac 
      accatgtgc aatatgggg tcgttcggg ctggaaacg 
      ataggaatg gcactcccg gggatgaag accaaaatt 
      ttgaacccc gaagacggg caaggggag atctgtatg 
      aacggacgc catgtcttc atggggtac ttgggcgat 
      agggagaag acagacgag gctatcgac tctgagggg 
      tggttgcat tcgggggat ttgggccga attgacgaa 
      aacaatttt atttatatt acggggcgt ttgaaggaa 
      cttatcatt acagcaggg ggtgaaaat ataccacca 
      gtgcccatc gaacagctg gtcaaatcg gagttgccc 
      cacgtcagt aacgtgttt cttgttggg gataaacga 
      aaatttctg tcggtttta ttgactttc aaaaccgac 
      gttgattcc gacactgct aggcctttg gataccttg 
      ctaccctcc gttcaagat tggttaaaa agtttaggg 
      tgcccggct aagaccgtc actgaggtt cttgaagcg 
      gggccccat cccaaactg ttggaagcg ctcaaagaa 
      agtattgat cgggttaac caacaagcc gtttccaac 
      gcccaaaga atacagaag ttgtcgata cttccagtc 
      gatttttcg gtagctaca ggggaatta ggaccgaca 
      atgaaagtc aagaggaac gtcgtggcc gcgaaatat 
      gcagacata attgaaaaa atgtatgcc taa
    mRNA sequence
    • >TC004625 RA
      ctgtttgcg aatccggta ttacacatt tttcgaaat 
      tttatttcg ttatctgaa tggtatata tgggtttat 
      tggttcggt cgtggttgg tatagcgct cttttaggt 
      catgggtga agtaaattc tgataagaa ccaaattta 
      aactaagtt tctcggtaa atcttctat tcagtcttc 
      agacagtac aagagagtg cttcagttt tcggtaagt 
      gttattcaa aagtcatga ccttcacca aagttaagt 
      acttacaca agttcggtg attaagaat ggggttttt 
      ggtcaattt atttattag gaatttttg taattaagg 
      ggcattaaa tccaaaaat tctgtaact ttttagtag 
      atgcctcca gatggtgga ggtttttat cgctcaata 
      aaatcttga tttcttcat tacgacgcg tatgtcgac 
      cgcagtact tattttcaa accgttcag ttcataaaa 
      aattgtacg tgcgtgaaa ttttcgtga gctcagttg 
      aaaacagac ttaaatcaa ggaggggga caccagtta 
      ttggtcaag aaacctctt aatagccac ttacacatt 
      tcgtcggta atcacatgt tgatgcaac cagcaatgt 
      agtcaagat ttgtattat tattttgtt acctacata 
      aaatcaaat ggcagtgat tagctgttg ttcgagtca 
      tttttattg gaaaaaaaa tacagtagg tgcgctaat 
      gaccgcata atggccagc gaatttcaa aacggtcca 
      gaccaaatc ttaccagcg gaagactcc accacaacc 
      agtccagat gtccccgtg cgtctccgc atcccggaa 
      actggaaaa gcgattgaa accactcct ccggtctca 
      atccccgga cttctcaaa cgcaccgct accgacttt 
      cccgaccat cctgcacta gcatacaag gccgaggga 
      aaatggaac aagataaca tacaaggaa tactacgag 
      ctagtgcga acctgtgct aaagctttc atcaagctg 
      ggcttagaa agacaccat gccgtctgc atcctgggc 
      tttaatagc ccggagtgg ttcatttca gatcttgcc 
      gcaattttc gcaggggga atagctgtg gggatttat 
      acaacgaat tcgagcgaa gcgtgcttt cattgcgcg 
      aatcacagt cgagcgaat attattgtc gtacaggac 
      caaaaacaa ctcgaaaaa attcttgca ataaaatcg 
      cgattaccg cacctgaaa gccatcatt caatacgag 
      ggcactccc acaagtgcc gatgttatc agctgggaa 
      gatttatta ataatcggg agagatcag gaggacgaa 
      gatctggaa agagtcctt aaaactatt ggagttaac 
      gaatgctgc actctcgtc tatacgtct ggcaccgtg 
      ggtaagccc aaagccgtg atgctaagt cacgataac 
      ttaacatgg gacgcgctg tcgatctgt gagcgtctg 
      gacgtgaaa aagggcgaa gaagtgatt gttagttac 
      ctccctttg agccatgtg gcggcccaa gtcaccgat 
      atttacata gcaatgatg tatgcagtt tgtatttac 
      ttcgccgac gcgaatgct cttaaaggc tcgctgata 
      aacactttg caagaagcc cagccgacg aaattcctg 
      ggtgttccg cgagtctgg gaaaaaatg cacgaaaaa 
      atgatgcaa gtcgccgcg caaaatggt cgagttaag 
      aagagtttg gcttcgtgg gccaaaagc caggcttta 
      cactaccac cttaaccga attaaaggg gtcaatggg 
      agcggttgg ggttattgt ctagccagt tctctcatt 
      tttaagaaa gttaaacaa gccctgggc ttgagtcgg 
      tgcacgttg tttgtctca gcggctgca cctctcgct 
      gccgacatc aagcgatat tttctgagc atcgatatg 
      ccaatcatg gaggctttt ggcatgtcg gaggcgagt 
      ggggcacac accatgtgc aatatgggg tcgttcggg 
      ctggaaacg ataggaatg gcactcccg gggatgaag 
      accaaaatt ttgaacccc gaagacggg caaggggag 
      atctgtatg aacggacgc catgtcttc atggggtac 
      ttgggcgat agggagaag acagacgag gctatcgac 
      tctgagggg tggttgcat tcgggggat ttgggccga 
      attgacgaa aacaatttt atttatatt acggggcgt 
      ttgaaggaa cttatcatt acagcaggg ggtgaaaat 
      ataccacca gtgcccatc gaacagctg gtcaaatcg 
      gagttgccc cacgtcagt aacgtgttt cttgttggg 
      gataaacga aaatttctg tcggtttta ttgactttc 
      aaaaccgac gttgattcc gacactgct aggcctttg 
      gataccttg ctaccctcc gttcaagat tggttaaaa 
      agtttaggg tgcccggct aagaccgtc actgaggtt 
      cttgaagcg gggccccat cccaaactg ttggaagcg 
      ctcaaagaa agtattgat cgggttaac caacaagcc 
      gtttccaac gcccaaaga atacagaag ttgtcgata 
      cttccagtc gatttttcg gtagctaca ggggaatta 
      ggaccgaca atgaaagtc aagaggaac gtcgtggcc 
      gcgaaatat gcagacata attgaaaaa atgtatgcc 
      taaactgtc gtttaataa agtgtttgg aacaga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY