Status
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Gene information
General information
TC008936 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_007422.5: 12268506..12278080
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
    		TC008936
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01440

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Adult morphology
    abdominal odoriferous glands colour not present - Number of animals showing the phenotype: 2 (13 dpi)
    Days post injection


    abdominal odoriferous glands complete not present - Number of animals showing the phenotype: 2 (13 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: - Number of animals showing the phenotype: 4
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

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

    pupal molt not fulfilled (died with pupal and larval features) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (not completely eclosed) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    Pupal morphology
    head bent - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008936 RA
      MVPQQNMDS SRSETPISS AVPKFGSQL IDKNSATPY 
SDATQTKKN NPNHIKRPM NAFMVWSQI ERRKICEVQ 
PDMHNAEIS KKLGRRWKE LKDDERQPF IEEAERLRQ 
LHQREYPDY KYRPRKKTT KPAPKSATS SKKSSKKSP 
KVQKNDNNN NSSNNSNAI VKERLYARR SALPESTSS 
KLKERLDLS PVMTPLPLP PVSILAKVP SSPSCDIPD 
SPESATIYD DSLAPLHHE AEDRLAHGS TATLDDLDR 
IDDFNLLQP MEIDLQELA DIEIMDSGS NGSGSHLDF 
DCPRDIPIF SSLGGSPWS DGVFNC
    CDS sequence
    • >TC008936 RA
      atggtgccc caacaaaac atggattca tccaggtca 
gaaacaccg attagtagt gctgtgccc aaattcggc 
tcacaacta attgacaaa aattcagca acaccctac 
tctgacgct actcagact aaaaagaac aatcccaac 
cacatcaaa agacccatg aacgcgttt atggtgtgg 
tctcagatc gagcgtaga aaaatttgc gaagtgcag 
ccagacatg cacaatgct gaaatttca aagaagctc 
ggccgccgc tggaaggag ttgaaagat gacgaacgc 
cagcctttc atcgaggag gccgaaagg ctccgacag 
ctccaccag agagagtat ccagattac aagtaccgt 
cctaggaaa aagacgacg aaaccggcc cccaaatcg 
gcgacttcc tccaagaaa tcgtccaaa aagtctcca 
aaagttcaa aagaacgat aacaataac aacagtagt 
aataacagc aatgcaatc gtgaaagag agattgtac 
gccagacgc tccgctttg cccgaatcg acgagttcg 
aagttgaaa gagaggctg gatttatcg ccggtgatg 
acgcccctt ccactgcca cctgtgagc attttggca 
aaggtgcca tctagtcct tcttgcgat atcccggat 
tccccggaa agcgccacg atctacgac gattcgctg 
gcgccgctg caccacgaa gccgaagac cggctcgcg 
cacggttcc actgccact ctggacgac ctggacagg 
atcgacgac ttcaacttg ctgcagccg atggagatt 
gatctgcag gagctggcg gacatcgag atcatggac 
agcggctcg aacgggtcc ggctcgcac ctggacttt 
gactgcccc agagacatc cccatcttc tcgagtctg 
gggggctcg ccctggagc gacggcgtg ttcaactgt 
tga
    mRNA sequence
    • >TC008936 RA
      tgtatttga tagtctctt taaatggag attaaacag 
caccccaga ttgtcagta tcgccacga ctgtaaaga 
gtagtaggt gttttaatt ttggtaaaa gtgagttcg 
agaaaaatt gcaaaaagt tcaatcgct cagttttga 
gacttttcg aactgttga tggtttttg tgcaatctt 
ctagtcacc cgaaagact acatatttt ttttcgagt 
tctgaagtt tggggagaa gtttaggaa aaacgcctg 
cgatttttt acgtaaaac tcgaaattt gtggatttt 
gttttggag ttcatcagc tggatatcg tcaacaaaa 
cgcatgctc tccccccac tcctgcggt agaggggat 
aaacagctg agaatcaga tacacactg acaacatca 
agttcagct tgtcagtcg cgctgttgt tgtgttact 
gtcggcaac aaatatgct aagtatagt cgagtgtgc 
acacacttg agaacttag caagatttt aatgcaaag 
ttagttgac tgtcgttcc gcccggtag tgtgaagtg 
aatgtgtac ttagttact aaattggat atggtgccc 
caacaaaac atggattca tccaggtca gaaacaccg 
attagtagt gctgtgccc aaattcggc tcacaacta 
attgacaaa aattcagca acaccctac tctgacgct 
actcagact aaaaagaac aatcccaac cacatcaaa 
agacccatg aacgcgttt atggtgtgg tctcagatc 
gagcgtaga aaaatttgc gaagtgcag ccagacatg 
cacaatgct gaaatttca aagaagctc ggccgccgc 
tggaaggag ttgaaagat gacgaacgc cagcctttc 
atcgaggag gccgaaagg ctccgacag ctccaccag 
agagagtat ccagattac aagtaccgt cctaggaaa 
aagacgacg aaaccggcc cccaaatcg gcgacttcc 
tccaagaaa tcgtccaaa aagtctcca aaagttcaa 
aagaacgat aacaataac aacagtagt aataacagc 
aatgcaatc gtgaaagag agattgtac gccagacgc 
tccgctttg cccgaatcg acgagttcg aagttgaaa 
gagaggctg gatttatcg ccggtgatg acgcccctt 
ccactgcca cctgtgagc attttggca aaggtgcca 
tctagtcct tcttgcgat atcccggat tccccggaa 
agcgccacg atctacgac gattcgctg gcgccgctg 
caccacgaa gccgaagac cggctcgcg cacggttcc 
actgccact ctggacgac ctggacagg atcgacgac 
ttcaacttg ctgcagccg atggagatt gatctgcag 
gagctggcg gacatcgag atcatggac agcggctcg 
aacgggtcc ggctcgcac ctggacttt gactgcccc 
agagacatc cccatcttc tcgagtctg gggggctcg 
ccctggagc gacggcgtg ttcaactgt tgaaagagg 
agactataa gactgtgtt aatccaatt cgtgtgttg 
gcgcataca atcattgtt atcctcctc tctcggatg 
gagacggtc cagaggcgg tttcaattg ttctaccag 
ctcaagttg tcgagccgg ccaggtcga tgatgtttt 
ataatttta ttatttaac cccgataaa tgatctcat 
cttgtgttt attttttat atttatcat atagtagcg 
cgtcagtgt ttcgttcat tcggttcat catcatacg 
tattcccgg attcaacca gttgttagt gcctagttc 
agtatgata tgtcggaca taacccggg tcgcccgtc 
attagtttc gatacttgt aaaatcccg ccggccgcc 
attttgtac attgttggt ggcagcggg acacaaaat 
caggctgtg attcatctg tttgatgac caatattta 
gttgtcaaa agtcagtgt agtttttcc gcctccagc 
tttgctaat tagttcggg cgcatttag cgacgacgg 
catacagct gattgtttc gttactgcc aactgcgaa 
cgcaacgtt tggttttac tcaccttgt atcttatct 
catcgtttt attcgtcga agaggcgca tctccgcgg 
ctctgcctt catttttaa taaaaatca tattgtatt 
gctttctga ttcgttcgt ccagaattg tacttaatg 
gtcctaaaa tcttgtaca gctgtaagg ttatttaag 
tgagcactg tgggtttgt tagtggtag gagttgata 
ttaacagta agatatcca aataggcta tagggttgt 
ttgtgctgc tgctgctgc tgtcaacga ctcgggcat 
tcggtttta ctttatctc gtccatcaa actctgttg 
cacaaaata ttgtttctc tcgttgcct cttgttcca 
gatgtcaat gctacgagc ttggtttac ctatacata 
cttatacgc ttaaaactt gtttccgtt caaatctta 
aagtcaatg cacaaactt tgtaatgag attaaaata 
gtatgaaaa tttttttca aaaataata gagtagcga 
gcgacatcg atattcttc tataataac atgatattg 
aggcacgac caacgctct acgtgtgct ttcaatgta 
ctagattaa actttacga taatattta aagttagat 
cggactgtc cgtattata agagttttc gaattttaa 
aattttatg aggcctggt acagtatga aaatgtaga 
atataacat attcggtgt atttttgta cccaatgtt 
tgttcagcg atgcaagtg cagagttgg ctgagacat 
gtcgctgac tgacttaga ttgtaggtt tttatgttg 
agctgtact ggttatgag ctgcgagtc gataataac 
ttctaattt ttaagttca ttgccgttc tttggttcg 
actgtcttc aggaactct gctctgctc ttgtatttc 
gcgacttgt atataacgt gtatagatt tgctcatgt 
aaaaattgt ttttgttga aacgtactg tttatgcaa 
tcattttaa ataattgca ataactatc gctgcaagt 
cttgaacgg catcctact gtggactca atactttca 
acgttcttt gcatatgat gtcacagtg cggcgtcga 
accagaccc tattgtaaa aaacgttac tttttgtgg 
cattgttga ccctttttg ttctggtaa acgattgag 
agattacaa atttagcaa tatttttgc atattatct 
tgatgtatc ataaaaatc cctgcattt ttgtagacc 
catgtatta tattcatat tactatatt aaagttatt 
atatagtgt gtaaatttt gtattgtag ttgctgtta 
aatatatta attatatgc ccaataaaa gattttttc 
aatt

    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