Status
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Gene information
General information
TC008012 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: 3879445..3882323
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
    		TC008012
    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 *
    {{ 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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01302

    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: 10.0% (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

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     maxillary palp shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    maxillary palp orientation irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    vitellarium size decreased - Number of animals showing the phenotype: 4

    mature egg not present - Number of animals showing the phenotype: 4
    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    previtellogenic egg chamber not present - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008012 RA
      MFSKKKKKP QISPPTNFE HRVHTGFDK REGRYVGLP 
LQWASIVGN NQILKSTNR PLPLVDPSE ITPTEILDL 
KTIVRGDHR SDSRLGKNP PNGILLPKT SNVARSNSL 
RSSSPPRLR HRNTNVPPA VPEEQILQY TSMRRDPSM 
SKPQVRESS PAERSLSNH EMPHHLNGN QEAYGGLIR 
EHPQVSPAG SMASAGLSQ LGAHSHSSH GSHQSLQQA 
GYGVRHDQN QNLKNGGQM GQVPGAAVA QTATKHHEQ 
RLTHEQFRA ALQMVVSSK DPRENLERF VKIGEGSTG 
TVCIAHDRT TGRQVAVKK MDLRKQQRR ELLFNEVVI 
MRDYHHPNI VEMFDSYLV NDELWVVME FLEGGALTD 
IVTHSRMDE EQIATVCKQ CLKALAYLH SQGVIHRDI 
KSDSILLAL DGRVKLSDF GFCAQVSQE LPKRKSLVG 
TPYWMSPEV ISRLPYGPE VDIWSLGIM VIEMVDGEP 
PFFNEPPLQ AMRRIREMP PPKLKNSHK VSARLQSFL 
DRMLVRDPA QRATAQELL AHPFLRQAG PPALLVPLM 
RGAKHSNY
    CDS sequence
    • >TC008012 RA
      atgttttcg aaaaagaag aagaaaccg caaatttcg 
cccccaaca aacttcgag catcgagtc cacaccggg 
tttgacaaa cgcgagggg cgctatgtg gggctgcca 
ctgcagtgg gcctcgatt gtgggtaac aaccaaatc 
ctcaaatca acaaatcgg cccctgccc ctcgtggac 
ccctccgaa ataaccccc acggaaatc ctagacctc 
aaaaccatc gtcagaggg gaccaccgc tccgacagc 
cgccttggc aaaaacccc cccaacggc attctcctc 
cccaaaacc tccaacgtc gcacgcagc aactcgctg 
cgctcctcc agccccccg agactgcgc cacaggaac 
accaacgtg cccccggca gtgcccgag gagcagata 
ctacagtac acctccatg aggagggac cccagcatg 
agcaagccc caagtgagg gaaagctcg cctgcggag 
cgctctttg agcaaccac gagatgccc caccatttg 
aatgggaat caggaggcc tacgggggg ctgatcagg 
gagcacccg caagtgtct ccagccgga tccatggcc 
tcagcgggg ctgtcgcaa ttgggggcg cactcgcat 
tcgagtcac ggatcgcat cagagtttg caacaggcg 
gggtacggg gtcaggcac gatcaaaat cagaatttg 
aagaatggg gggcagatg gggcaggtg ccgggggcg 
gcggtggca cagactgcg acgaagcat cacgaacaa 
aggctgaca cacgaacag ttccgagct gctctccag 
atggtcgtc tcgtcgaag gaccctcgc gagaacctg 
gagcgtttc gtgaaaatc ggcgaaggc tccaccggc 
accgtttgc atcgcccac gaccgcacc accgggcgt 
caagtcgcc gtcaaaaaa atggatctc cgcaaacag 
caacgtcgc gaactcctc ttcaacgag gtggtgata 
atgcgcgac taccaccac cccaacatc gtcgaaatg 
ttcgactcg tacctcgtc aacgacgag ctgtgggtc 
gtgatggag ttcctcgaa ggtggggct ctcaccgac 
atcgtcact cattcccgc atggacgaa gaacaaatc 
gccacggtg tgcaaacag tgtctcaaa gctttggct 
tatctccat tcgcaaggc gtcatccat cgcgatatc 
aagtccgat tcgattttg ctggctctg gatggaaga 
gtcaagctt tccgacttc gggttctgt gcccaggtc 
tcccaggag ttgcccaaa cggaagagt ttggtcggg 
acgccgtat tggatgtcg ccggaagtc atcagtcgg 
ttgccgtac gggccggaa gttgatatt tggtcgctg 
gggattatg gttatagag atggtggac ggcgagccg 
ccgtttttc aatgagcct ccattgcag gcgatgaga 
agaatcaga gaaatgccg ccgccgaaa ttgaaaaat 
agtcataaa gtctcagca aggctgcaa agtttctta 
gatagaatg cttgttaga gatcctgca cagagagcc 
acagctcag gagttgctc gcgcatccc ttcctgaga 
caagcagga ccgcctgcg cttctggtg ccgctgatg 
agaggcgct aaacactct aattattga
    mRNA sequence
    • >TC008012 RA
      ctcgaatcg cttaaatcg tcgaagttg agtgttttg 
gtgtcatgt tttcttaat ttcctcagt ttttcgtct 
ttaatttca cttaaaatc aacaaataa tcaaaaact 
agtgccttc cctctagtt actatacta aaaaagtgt 
gaaaatgtc tcgtgacgt atcaaataa acaatcgag 
ttcaggtta tgtgtgttg acactgtta ccgttggtc 
gtaaaaaac ggtgtaaag gggcgtagc aacctactt 
gtgattccg tctcagacc gaaatgttt tcgaaaaag 
aagaagaaa ccgcaaatt tcgccccca acaaacttc 
gagcatcga gtccacacc gggtttgac aaacgcgag 
gggcgctat gtggggctg ccactgcag tgggcctcg 
attgtgggt aacaaccaa atcctcaaa tcaacaaat 
cggcccctg cccctcgtg gacccctcc gaaataacc 
cccacggaa atcctagac ctcaaaacc atcgtcaga 
ggggaccac cgctccgac agccgcctt ggcaaaaac 
ccccccaac ggcattctc ctccccaaa acctccaac 
gtcgcacgc agcaactcg ctgcgctcc tccagcccc 
ccgagactg cgccacagg aacaccaac gtgcccccg 
gcagtgccc gaggagcag atactacag tacacctcc 
atgaggagg gaccccagc atgagcaag ccccaagtg 
agggaaagc tcgcctgcg gagcgctct ttgagcaac 
cacgagatg ccccaccat ttgaatggg aatcaggag 
gcctacggg gggctgatc agggagcac ccgcaagtg 
tctccagcc ggatccatg gcctcagcg gggctgtcg 
caattgggg gcgcactcg cattcgagt cacggatcg 
catcagagt ttgcaacag gcggggtac ggggtcagg 
cacgatcaa aatcagaat ttgaagaat ggggggcag 
atggggcag gtgccgggg gcggcggtg gcacagact 
gcgacgaag catcacgaa caaaggctg acacacgaa 
cagttccga gctgctctc cagatggtc gtctcgtcg 
aaggaccct cgcgagaac ctggagcgt ttcgtgaaa 
atcggcgaa ggctccacc ggcaccgtt tgcatcgcc 
cacgaccgc accaccggg cgtcaagtc gccgtcaaa 
aaaatggat ctccgcaaa cagcaacgt cgcgaactc 
ctcttcaac gaggtggtg ataatgcgc gactaccac 
caccccaac atcgtcgaa atgttcgac tcgtacctc 
gtcaacgac gagctgtgg gtcgtgatg gagttcctc 
gaaggtggg gctctcacc gacatcgtc actcattcc 
cgcatggac gaagaacaa atcgccacg gtgtgcaaa 
cagtgtctc aaagctttg gcttatctc cattcgcaa 
ggcgtcatc catcgcgat atcaagtcc gattcgatt 
ttgctggct ctggatgga agagtcaag ctttccgac 
ttcgggttc tgtgcccag gtctcccag gagttgccc 
aaacggaag agtttggtc gggacgccg tattggatg 
tcgccggaa gtcatcagt cggttgccg tacgggccg 
gaagttgat atttggtcg ctggggatt atggttata 
gagatggtg gacggcgag ccgccgttt ttcaatgag 
cctccattg caggcgatg agaagaatc agagaaatg 
ccgccgccg aaattgaaa aatagtcat aaagtctca 
gcaaggctg caaagtttc ttagataga atgcttgtt 
agagatcct gcacagaga gccacagct caggagttg 
ctcgcgcat cccttcctg agacaagca ggaccgcct 
gcgcttctg gtgccgctg atgagaggc gctaaacac 
tctaattat tgatctgta cttaatgca tatatgttg 
atatttatg gaggtaagt cccaatctt tgcgtaatt 
taagtcata ccaaatatt aattaagac agctctctt 
aattcgatc tgattaaac gttattaag gtccagtat 
tacgaaatt gcaagccgt ccatgtagt gccttgagg 
ctcataatg gggtttttc caattattt tccgatttt 
gttaggttt aagcttgtt gagtatttt aaggaatta 
actttacga cgtagcgct gtaatatat acaaacaga 
aagtgtcat aatacactt gatattttt ta

    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