Status
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Gene information
General information
TC007982 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_007419.2: 3416930..3422190
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
    		TC007982
    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
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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_01297

    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)

    adult lethality - Number of animals showing the phenotype: 3 (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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC007982 RA
      MKETAAESS PSKLSKGLL MVPKNAAIL QHRRAGSTG 
TTGDESYTT DEEDNVEID EPDLRNPRK LFNHDSSDF 
GSFSDIATI TDKVMHRNS SDSSVYSDL GLDKLEKGE 
DQTDWARQV VGAKEQTFA RLQDELRDA HQELKLKDE 
EVARLSRIR QDVEAELED LTASLFQEA HNMVREANE 
KQATAEKAL KESQMKVDV LTAEVAALK TLVLTSTPS 
RPNPHLHPQ IDGRIKDES KKHRRSPSH FNLKYGREN 
SPPESPVKE VYHIPCEVE NKEGLEVDP NVHREFLAW 
RQKPCLDKG DPFVQRIYR EDIDLCLTF SNEDLSTKV 
REAVESGTI LIEAVGDKT KAMFPKKCA LLEVPRLCF 
YRMNIGETD TWYSISQIC RNRLIAVCD FLNYLKYIE 
RGLVKSSAH DVYWEIVRL RKEMVLARL GLNLNS
    CDS sequence
    • >TC007982 RA
      atgaaagaa acggcggcg gaatcgtcg ccgagcaaa 
ctcagcaag ggtctgctg atggtgccc aagaacgcc 
gcaattttg cagcaccga cgcgcgggc tcgacgggc 
acgaccggg gacgaatcc tatacaacc gatgaagaa 
gacaacgtc gagattgac gaacccgat cttcgaaac 
cctaggaaa ctcttcaac catgacagc agcgacttc 
ggatcgttt tcggacatc gcgaccatc accgacaag 
gtgatgcac cggaacagt tccgacagt tcggtctac 
agcgatttg gggttggac aagttggaa aaaggagag 
gaccaaacg gattgggct agacaagtg gtcggcgcg 
aaagagcag acttttgcg cggctgcaa gacgaactg 
cgagatgcc catcaagag ttgaagctg aaagacgaa 
gaagtggcc agattgtcg cgcattaga caggatgtg 
gaggccgaa ctcgaggac ttgactgcg agcctcttt 
caggaagcg cacaacatg gtcagggag gcgaatgag 
aaacaagcg actgctgaa aaggctctg aaggaaagc 
caaatgaag gtggacgtc ctaacggct gaagttgcc 
gccttgaag acgttggtt ttgacgtcg actccgagc 
aggccaaac cctcacctg catccacag atcgacgga 
agaataaag gatgaaagt aagaagcat cgcaggtct 
ccaagtcac tttaatctg aaatatgga cgggaaaat 
tcgccgccg gagtcaccg gtaaaggag gtgtatcac 
atcccatgc gaagtagaa aataaggag ggtttggag 
gtggatccg aacgtgcat cgggaattt ctggcatgg 
agacaaaaa ccgtgtttg gacaaaggc gatccgttc 
gtgcagaga atttatcgg gaagatatc gatctgtgt 
ttgacgttt agtaatgaa gacttgtcg acaaaagta 
cgagaagcg gttgaatcg ggaactata ctcatcgag 
gctgtgggg gacaaaact aaggccatg tttcctaaa 
aaatgtgct ttacttgaa gtaccaagg ctgtgtttc 
tatcgaatg aacattgga gagacggat acctggtac 
agcatatca cagatatgt agaaatagg ttaattgcc 
gtttgtgat tttttaaac tatctcaaa tacatcgaa 
cgcggtctc gtgaaaagt tctgcacat gacgtctat 
tgggagatc gttcgatta aggaaggaa atggtgtta 
gcaagattg ggactaaat ctcaattct tga
    mRNA sequence
    • >TC007982 RA
      gcgctgtag tgagtgaga gtcgagcag ttgcgatgt 
tcgcaagtg ttctgtttc tgattgttg tggatgttt 
aaatatagg atatgaaac aatgaagtg attgaaatt 
tcttcgtga agatgaaag aaacggcgg cggaatcgt 
cgccgagca aactcagca agggtctgc tgatggtgc 
ccaagaacg ccgcaattt tgcagcacc gacgcgcgg 
gctcgacgg gcacgaccg gggacgaat cctatacaa 
ccgatgaag aagacaacg tcgagattg acgaacccg 
atcttcgaa accctagga aactcttca accatgaca 
gcagcgact tcggatcgt tttcggaca tcgcgacca 
tcaccgaca aggtgatgc accggaaca gttccgaca 
gttcggtct acagcgatt tggggttgg acaagttgg 
aaaaaggag aggaccaaa cggattggg ctagacaag 
tggtcggcg cgaaagagc agacttttg cgcggctgc 
aagacgaac tgcgagatg cccatcaag agttgaagc 
tgaaagacg aagaagtgg ccagattgt cgcgcatta 
gacaggatg tggaggccg aactcgagg acttgactg 
cgagcctct ttcaggaag cgcacaaca tggtcaggg 
aggcgaatg agaaacaag cgactgctg aaaaggctc 
tgaaggaaa gccaaatga aggtggacg tcctaacgg 
ctgaagttg ccgccttga agacgttgg ttttgacgt 
cgactccga gcaggccaa accctcacc tgcatccac 
agatcgacg gaagaataa aggatgaaa gtaagaagc 
atcgcaggt ctccaagtc actttaatc tgaaatatg 
gacgggaaa attcgccgc cggagtcac cggtaaagg 
aggtgtatc acatcccat gcgaagtag aaaataagg 
agggtttgg aggtggatc cgaacgtgc atcgggaat 
ttctggcat ggagacaaa aaccgtgtt tggacaaag 
gcgatccgt tcgtgcaga gaatttatc gggaagata 
tcgatctgt gtttgacgt ttagtaatg aagacttgt 
cgacaaaag tacgagaag cggttgaat cgggaacta 
tactcatcg aggctgtgg gggacaaaa ctaaggcca 
tgtttccta aaaaatgtg ctttacttg aagtaccaa 
ggctgtgtt tctatcgaa tgaacattg gagagacgg 
atacctggt acagcatat cacagatat gtagaaata 
ggttaattg ccgtttgtg attttttaa actatctca 
aatacatcg aacgcggtc tcgtgaaaa gttctgcac 
atgacgtct attgggaga tcgttcgat taaggaagg 
aaatggtgt tagcaagat tgggactaa atctcaatt 
cttgacgct aacatcatt gccacgaag aaatgtgcc 
aagaatctg ataattcaa aaccaaaga cttcttttg 
taaatattg cgaattagt tgcttgaag attattatt 
gtcttccca gattttaat tgtaaatac caattatta 
gagaaaaaa ctcaaatat gtattgact gttaaaaat 
tttcctttt ttttaatta aattcagga atattacaa 
attttctgt aacgaatta ataaaaaat cttgaaaca 
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    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