Status
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Gene information
General information
TC003284 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_007418.3: 747059..750702
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
    		TC003284
    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
    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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03534

    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 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    Fertility
    egg production: number <50% of expected -
    ovary without detectable defects - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003284 RA
      MHFSWYDYI LFGMMLTIS TLVGVYFGF FGSKKSTAN 
EYLLGDKTM KPFIITISL IASHISGTT LLGLPADAY 
RFGGTFLLS GISMIFVVI ATIYIYLPV FYNLHITTL 
YEYLEMRFD NRTKKLVSF LYIMYSFLI LPLIIYAAS 
LAVSTATGL RMTIIVPLV CGTCIFYTS IGGFKAVIW 
SDTFLCIIT QTSVLIVFI LGIKSVGGF SEIWRRALD 
SERLDLFNF EFDATKRHS FWTIVIGVS FIWFNFGST 
VIFYGFGVV LIKAICVSL GLVIYANYH GCDPFTTKK 
VASNDQLVP YFVMEVAKS APGLAGVFI AGIMSSGLS 
GLSANLNCL AGTIYVDFL AQFFPNISE KNKCRILKV 
IVVVAGLVC LGMTFLVQF LGGIVPLTI TFQAIANGP 
VLGIFTLGL CVPRAGAKA AFYGAIIGL VAISTIVVP 
ARYYQSQGL IDDFPKPVS TNSCTNYNQ TLVLPSDNS 
VPNEPFILF RISYFFYTL IGSVVTLVV GLLISYTTS 
DVATVDEKL ITPLARFLL PKNRKAKLA KYQSVEAAL 
KSLKNNNL
    CDS sequence
    • >TC003284 RA
      atgcatttc tcttggtat gactacatc ctcttcggg 
atgatgctc acaataagt acgctggtt ggcgtttac 
tttggtttt tttggctcc aaaaaatca acagccaat 
gagtacctc ctgggtgac aaaacgatg aaacctttc 
attatcaca atttcgcta atcgccagt cacatttct 
ggaactact ctactaggc cttccagcc gatgcgtac 
cgctttggc ggaacgttc ctgctaagt ggcattagc 
atgattttt gttgttata gcaacaatt tacatttat 
ttgcccgta ttttacaac ttgcacata accacgctt 
tatgagtac ctcgaaatg cggtttgat aacagaacg 
aaaaagttg gtttcgttc ctttatatc atgtactcg 
ttcctgatt ctacctcta atcatctat gcagcatct 
ctagccgta tccactgcc accggtctt cgaatgact 
ataatcgtg cctctagtc tgcggaact tgcattttt 
tacacaagc attggcggt tttaaagct gtgatatgg 
agcgacact ttcctatgc ataatcacc caaacctct 
gtccttatc gtttttatc ctgggaatt aaatcagtt 
ggtggattt tcggaaatt tggagacgt gcattggac 
agtgaacga ctcgactta ttcaacttt gaattcgat 
gccaccaaa agacacagc ttctggacc atagtgatt 
ggagtttcg ttcatttgg tttaatttt ggtagtact 
gtcatattt tatggtttt ggtgtagta ctaattaag 
gcaatttgt gtctcactt ggacttgta atttacgcc 
aattaccat ggttgtgac cctttcacg accaaaaaa 
gtggcaagt aacgaccaa ttagtaccg tattttgtg 
atggaagtt gccaaaagt gccccaggt ttagctgga 
gttttcata gctggaatt atgagctct gggctaagt 
ggcctttcg gccaactta aattgcttg gctggaacc 
atctacgtt gattttttg gcacagttt ttcccaaac 
atttcggaa aaaaacaaa tgtcgcatc ctgaaagtg 
atagttgtt gtggcaggt cttgtgtgc cttggtatg 
acttttctg gtccagttt ttgggcgga attgttccc 
ctaaccatc acttttcaa gcaatagcc aatgggcca 
gtccttggt atatttacc ttgggactt tgcgtacca 
cgagctggt gccaaagcc gctttttat ggtgctata 
attggtcta gttgcaatt tcaacaatc gtggtacca 
gcaaggtac taccaaagc caaggctta attgatgat 
tttccaaaa ccagtctcc acaaatagt tgtactaac 
tacaaccaa actttagta ctaccatcc gataattca 
gtaccaaat gaacctttt attctattc agaatctcc 
tactttttt tacaccctt ataggatca gttgtaaca 
ctagtggtg ggtttatta attagttac accactagt 
gatgttgca acggttgat gagaaatta atcacacct 
ttggctcgc tttctactg cccaaaaat aggaaagcc 
aagttggca aagtaccaa agtgttgaa gcagctttg 
aaaagtttg aagaacaat aatttatga
    mRNA sequence
    • >TC003284 RA
      gcgatagaa tataaaagt gtgttagtt gttacattg 
aaaatgcat ttctcttgg tatgactac atcctcttc 
gggatgatg ctcacaata agtacgctg gttggcgtt 
tactttggt ttttttggc tccaaaaaa tcaacagcc 
aatgagtac ctcctgggt gacaaaacg atgaaacct 
ttcattatc acaatttcg ctaatcgcc agtcacatt 
tctggaact actctacta ggccttcca gccgatgcg 
taccgcttt ggcggaacg ttcctgcta agtggcatt 
agcatgatt tttgttgtt atagcaaca atttacatt 
tatttgccc gtattttac aacttgcac ataaccacg 
ctttatgag tacctcgaa atgcggttt gataacaga 
acgaaaaag ttggtttcg ttcctttat atcatgtac 
tcgttcctg attctacct ctaatcatc tatgcagca 
tctctagcc gtatccact gccaccggt cttcgaatg 
actataatc gtgcctcta gtctgcgga acttgcatt 
ttttacaca agcattggc ggttttaaa gctgtgata 
tggagcgac actttccta tgcataatc acccaaacc 
tctgtcctt atcgttttt atcctggga attaaatca 
gttggtgga ttttcggaa atttggaga cgtgcattg 
gacagtgaa cgactcgac ttattcaac tttgaattc 
gatgccacc aaaagacac agcttctgg accatagtg 
attggagtt tcgttcatt tggtttaat tttggtagt 
actgtcata ttttatggt tttggtgta gtactaatt 
aaggcaatt tgtgtctca cttggactt gtaatttac 
gccaattac catggttgt gaccctttc acgaccaaa 
aaagtggca agtaacgac caattagta ccgtatttt 
gtgatggaa gttgccaaa agtgcccca ggtttagct 
ggagttttc atagctgga attatgagc tctgggcta 
agtggcctt tcggccaac ttaaattgc ttggctgga 
accatctac gttgatttt ttggcacag tttttccca 
aacatttcg gaaaaaaac aaatgtcgc atcctgaaa 
gtgatagtt gttgtggca ggtcttgtg tgccttggt 
atgactttt ctggtccag tttttgggc ggaattgtt 
cccctaacc atcactttt caagcaata gccaatggg 
ccagtcctt ggtatattt accttggga ctttgcgta 
ccacgagct ggtgccaaa gccgctttt tatggtgct 
ataattggt ctagttgca atttcaaca atcgtggta 
ccagcaagg tactaccaa agccaaggc ttaattgat 
gattttcca aaaccagtc tccacaaat agttgtact 
aactacaac caaacttta gtactacca tccgataat 
tcagtacca aatgaacct tttattcta ttcagaatc 
tcctacttt ttttacacc cttatagga tcagttgta 
acactagtg gtgggttta ttaattagt tacaccact 
agtgatgtt gcaacggtt gatgagaaa ttaatcaca 
cctttggct cgctttcta ctgcccaaa aataggaaa 
gccaagttg gcaaagtac caaagtgtt gaagcagct 
ttgaaaagt ttgaagaac aataattta tgatcaata 
aataatttt gtcaaat

    If you use iBeetle-Base, please cite: Dönitz J et al.: Expanded and updated data and a query pipeline for iBeetle-Base,
    Nucleic Acids Res. 2018 Jan 4;46(D1):D831-D835. doi: 10.1093/nar/gkx984.

    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY