Status
Please wait ...
Gene information
General information
TC004375 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_007425.3: 6947870..6950651
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
    TC004375
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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
    {{ blurEvidenceResult }}
    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 *
    {{ blurReferenceResult }}
    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
    You may enter your name. The contact information can help us to clarify any questions. If you agree, we may show your name on this page to honor your contribution.
    Email
    We will use your email address only for possible questions regarding this annotation. We will never show your address or give it away.
    Publish name
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09807

    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: 50.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: % (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
    • >TC004375 RA
      MQCRELNST AAKVLKQRT QFSANFIQR LGLEAELEG 
      HQGCVNCLE WSPNGLHLA SGSDDTNVI LWDPFRHKQ 
      INVIPTPHI GNIFSVKFL ADENVIATA AGDCRVVVQ 
      SVSGALDKS APLLDCACH IGRVKRLAT APDQPTLFW 
      SAGEDGLVV QYDLREPHE CPTQSKVLV DLSFKSEIK 
      CIAVNPTKS HYIAIGAND CFVRLYDRR MIKVSMANL 
      SFNPSKRTS PQPQNSDCV QYYAPGHLA RENAGIMSI 
      KLSVTYIAF NSAGSEMLV NIGGEQIYL FDVNNSRHI 
      NELKIPQNL PKRPHQPYR NCCQPNVLL AELNGVSAD 
      LFEKNTDCA CFYMRRALQ AYQRKWMGD LYAAARDYL 
      HVIQHWPDH KQAYIGLIK CLIAMKWED EANAWLKHF 
      TKLYPECET SSQVKFLVE ELQALKNSV KFEETGVKK 
      VEDDEKKLR LDSFDFEKI YIGHCNTTT DIKEANFLG 
      DCDNYICAG SDEGIIFIW DKKSMNVVR ALFGDNSIV 
      NCIQPHPSA CVIASSGID TAVKIWSPR PEDGKVNNR 
      IVKCISTVV ETNQHRMSM DPFESMLAS MGYQIEGSA 
      LDGSSIQEV PTCRTS
    CDS sequence
    • >TC004375 RA
      atgcaatgc cgggaactg aacagcacc gcagcaaaa 
      gtcctcaaa cagcgcacc caattcagc gccaatttc 
      atccagagg ttaggactc gaggcggag cttgagggg 
      caccagggc tgcgtcaac tgcctggaa tggagcccc 
      aacggactg cacctggcg tccggctcc gacgacacc 
      aacgtcatc ctctgggac cccttcaga cacaagcaa 
      ataaacgtg atcccgacc ccacacatt ggcaatatc 
      ttttccgtt aaattttta gccgacgaa aatgtcatc 
      gcgacggcg gccggggat tgccgagtg gtggtccag 
      agcgtgtcg ggggccctc gacaagagc gcccccttg 
      ctggactgc gcgtgccac atcggccgg gtcaaacgc 
      ctggccacg gcccccgac cagcctact ctgttctgg 
      tcagcgggc gaagatggc ctagttgtg caatacgac 
      ttgcgggaa ccccacgag tgtcccacg caaagcaag 
      gtcttagtc gacctaagc ttcaaatcg gaaatcaaa 
      tgcattgct gtgaatccc acaaaatcg cactatatc 
      gcaataggc gccaacgac tgcttcgtg cgcttgtat 
      gacaggagg atgatcaaa gtatcaatg gcgaatttg 
      tcgtttaat ccgtcgaag aggacgtcc ccgcagccc 
      caaaacagc gactgtgtg caatactac gcccccggg 
      cacctggca cgcgaaaat gccggcatt atgagcatc 
      aaactatca gtcacttat atcgcgttc aattccgcc 
      ggttcagaa atgttggta aatatcggg ggtgaacag 
      atttattta tttgatgta aataatagc cgacacatt 
      aacgaactc aaaatcccc caaaactta cctaaacgg 
      ccccatcaa ccctaccgg aattgttgc caaccgaac 
      gtactgttg gctgaactt aacggggtc agcgccgac 
      ttgtttgag aaaaacacg gactgtgcc tgcttttac 
      atgaggcgg gcgctacag gcgtaccaa cgcaagtgg 
      atgggcgat ttgtatgcg gcagcacgt gattattta 
      cacgtgatt cagcattgg ccggaccat aaacaggct 
      tacattgga ttaatcaaa tgcctaatt gccatgaag 
      tgggaagac gaagccaac gcttggttg aaacacttt 
      acaaaactt taccccgaa tgtgaaacc tcctcgcag 
      gtgaaattc ctcgttgag gagttgcaa gcgctcaaa 
      aacagcgtc aagtttgag gagacggga gtgaagaag 
      gtggaagat gatgagaaa aagttacgt ttggattcg 
      ttcgatttt gagaagatt tacataggg cattgtaat 
      accacgact gatatcaag gaggcgaat tttttaggt 
      gattgtgat aattatatt tgtgcagga tcggacgaa 
      gggatcatt tttatctgg gataagaag agtatgaat 
      gtggttagg gctctcttt ggagataat tcgatagtt 
      aattgcatt caaccacac cctagtgcc tgtgttata 
      gcgtccagc gggattgat acggccgtt aaaatatgg 
      tcgcctcgg cctgaggac ggcaaagtg aacaaccga 
      atcgtcaaa tgcatctcc actgtagtc gaaacaaat 
      cagcatcgc atgtcaatg gacccattc gaatcaatg 
      ttggcgagc atgggttac cagatcgaa ggaagcgct 
      ttagacgga tcgtccatt caagaagta ccaacgtgc 
      cgaactagc taa
    mRNA sequence
    • >TC004375 RA
      tccataaac aaaaacaaa tgagtgtat cttttgaca 
      tctttcaaa aaagcaatt aaggcctca atcgtcacg 
      taaagccgt aattttatg atgaaattt tcgaaaaat 
      ttgtattta tgatgcccg atttgctaa agcaaagat 
      ggaaaacaa aataaaagg atggaaaag caaccgtaa 
      cgtgttaaa gttgatgca atgccggga actgaacag 
      caccgcagc aaaagtcct caaacagcg cacccaatt 
      cagcgccaa tttcatcca gaggttagg actcgaggc 
      ggagcttga ggggcacca gggctgcgt caactgcct 
      ggaatggag ccccaacgg actgcacct ggcgtccgg 
      ctccgacga caccaacgt catcctctg ggacccctt 
      cagacacaa gcaaataaa cgtgatccc gaccccaca 
      cattggcaa tatcttttc cgttaaatt tttagccga 
      cgaaaatgt catcgcgac ggcggccgg ggattgccg 
      agtggtggt ccagagcgt gtcgggggc cctcgacaa 
      gagcgcccc cttgctgga ctgcgcgtg ccacatcgg 
      ccgggtcaa acgcctggc cacggcccc cgaccagcc 
      tactctgtt ctggtcagc gggcgaaga tggcctagt 
      tgtgcaata cgacttgcg ggaacccca cgagtgtcc 
      cacgcaaag caaggtctt agtcgacct aagcttcaa 
      atcggaaat caaatgcat tgctgtgaa tcccacaaa 
      atcgcacta tatcgcaat aggcgccaa cgactgctt 
      cgtgcgctt gtatgacag gaggatgat caaagtatc 
      aatggcgaa tttgtcgtt taatccgtc gaagaggac 
      gtccccgca gccccaaaa cagcgactg tgtgcaata 
      ctacgcccc cgggcacct ggcacgcga aaatgccgg 
      cattatgag catcaaact atcagtcac ttatatcgc 
      gttcaattc cgccggttc agaaatgtt ggtaaatat 
      cgggggtga acagattta tttatttga tgtaaataa 
      tagccgaca cattaacga actcaaaat cccccaaaa 
      cttacctaa acggcccca tcaacccta ccggaattg 
      ttgccaacc gaacgtact gttggctga acttaacgg 
      ggtcagcgc cgacttgtt tgagaaaaa cacggactg 
      tgcctgctt ttacatgag gcgggcgct acaggcgta 
      ccaacgcaa gtggatggg cgatttgta tgcggcagc 
      acgtgatta tttacacgt gattcagca ttggccgga 
      ccataaaca ggcttacat tggattaat caaatgcct 
      aattgccat gaagtggga agacgaagc caacgcttg 
      gttgaaaca ctttacaaa actttaccc cgaatgtga 
      aacctcctc gcaggtgaa attcctcgt tgaggagtt 
      gcaagcgct caaaaacag cgtcaagtt tgaggagac 
      gggagtgaa gaaggtgga agatgatga gaaaaagtt 
      acgtttgga ttcgttcga ttttgagaa gatttacat 
      agggcattg taataccac gactgatat caaggaggc 
      gaatttttt aggtgattg tgataatta tatttgtgc 
      aggatcgga cgaagggat catttttat ctgggataa 
      gaagagtat gaatgtggt tagggctct ctttggaga 
      taattcgat agttaattg cattcaacc acaccctag 
      tgcctgtgt tatagcgtc cagcgggat tgatacggc 
      cgttaaaat atggtcgcc tcggcctga ggacggcaa 
      agtgaacaa ccgaatcgt caaatgcat ctccactgt 
      agtcgaaac aaatcagca tcgcatgtc aatggaccc 
      attcgaatc aatgttggc gagcatggg ttaccagat 
      cgaaggaag cgctttaga cggatcgtc cattcaaga 
      agtaccaac gtgccgaac tagctaatt ttttaacaa 
      aaccattac aaccagatt tgtaactga aagttgcaa 
      acgaataaa tccacctct tgtttacaa tttaatcgt 
      aaacaaccg aaggaatcg ctcatttat tttgtactt 
      tctagaggg tgcgttttt gttgttgat ttttaaatg 
      atatataca caatactgt aaatagtgt ttatgttaa 
      taattttaa agatttttt
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY