Status
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Gene information
General information
TC034322 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_007424.3: 6789439..6794828
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
    		TC034322
    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
    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_07627

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head appendages position irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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
    • >TC034322 RA
      MGSYLSEPA TEKESTDDT NGKLTYGAS SMQGWRMTQ 
EDAHNCILN YDEDTSFFA VYDGHGGQE VAQYCSDKL 
PDFIKNTPE YKEGNIEEA LVSGFLRFD ALIATPEVV 
EELRKIADD KDENESDEE ENVNNLYEE AAMPIEQVI 
EKYTSNLSN PAVKSLKRD IKSPFLTAK TDSDPTVGT 
SSAGSCSSS TSQGGDGVS SSSEAGLKD KTEEENKPE 
TNGPGEVSD EKPNSSEVK DEAQAKSDV TSSSTPVEN 
GTPSKKGKG KAVIKPEPV KTPTNTRPK RTAQQLYKN 
WLNCGEEES DSSDEEDQT FEGPNEESS EDENEGVNI 
AIDAEGSEE ESSEEEEEE DEDEEDDDS EDADVRTFK 
EEPGSDSGC TAVVALLKG NQLYVANAG DSRCIVCRN 
GKPIEMSID HKPEDKPER KRIQKAGGE VTWEGRVNG 
GLNLSRAIG DHAYKQNKN LSDREQMIT ALPDIKTLT 
INPEEDEFM FLACDGIWN AMSNEKVVA FIRPRLQDN 
TKKLSQICE EMFDHILAP DTVWDNAGS DNMTAIIVK 
FKSHKRPIS PSQTEESAA KRTKSEAES EAQVDTTV
    CDS sequence
    • >TC034322 RA
      atgggctcg tatttatca gaaccggcc accgagaaa 
gagtccacc gacgacacc aacggcaaa ttaacttat 
ggggcaagc tctatgcag ggctggcgt atgacccaa 
gaggacgca cataactgt atcttaaac tacgacgag 
gacacttcg tttttcgcc gtctacgac ggacatggg 
ggccaggaa gtggcccag tattgctcg gacaagctc 
ccggacttc atcaagaac acgcccgag tacaaggag 
ggaaacatc gaggaggcg ctcgtttcg ggctttttg 
aggtttgac gcgctcatt gccacgcca gaagttgtg 
gaggaattg aggaaaatc gccgatgat aaggacgag 
aacgagagc gacgaagag gaaaatgtt aacaatttg 
tacgaagag gcggccatg cccattgag caagttatt 
gaaaagtac acctctaac ttgtctaat ccggcggtg 
aaaagttta aaaagggac attaaatcg ccctttttg 
accgccaaa acagacagt gaccccacg gtaggcacc 
tcctcagcg ggctcctgc tcgagctcc acgagccaa 
ggcggcgac ggcgtcagc agctccagc gaggcggga 
cttaaggat aagacagaa gaggagaac aagccggag 
accaacggt cctggcgaa gtttccgac gaaaaaccc 
aacagttca gaggttaaa gacgaagcc caggctaag 
agtgacgtc acgagttca tcaacacct gttgaaaat 
ggcacgccg tcaaaaaag ggtaaagga aaggcagtc 
attaaacca gaacctgta aaaacacca acaaacaca 
cgaccaaaa cggacggca caacagttg tataaaaac 
tggttgaat tgtggagag gaagagagt gacagcagc 
gacgaagaa gaccaaaca tttgagggt ccaaatgag 
gagagctcg gaggacgaa aatgagggc gttaacatc 
gcaattgac gcggagggc tctgaggaa gagagttcg 
gaagaagag gaggaggaa gatgaggac gaggaagac 
gatgacagt gaagatgca gatgtcaga acctttaaa 
gaagagcca gggtctgac agtggctgc acggcagtt 
gtggcgttg ttaaaaggc aaccagttg tacgtagcc 
aacgccggg gattcccgt tgcatagtg tgtcggaat 
ggcaaacca atagagatg agtatagac cacaagccg 
gaggacaag cccgagaga aaaaggata cagaaagca 
gggggcgaa gtgacatgg gagggccgt gtcaacggc 
ggcctaaac ctctcacgg gccattgga gaccacgca 
tacaagcaa aacaagaac ctatcagac cgtgaacaa 
atgatcaca gctttgccc gacatcaag actttaacg 
attaatcca gaggaagac gagttcatg tttcttgcg 
tgcgacgga atctggaat gcgatgtca aacgagaag 
gtcgtagcc ttcatcagg ccacgtctt caagacaat 
acgaagaaa ttatcccaa atctgcgaa gagatgttc 
gaccatatt ctggcacct gacacggtg tgggacaat 
gccgggagt gacaacatg accgcaatt atcgtaaaa 
ttcaagtca cacaaaaga ccaatttcg ccttcacag 
acggaagaa agcgcagcg aaacggaca aagagcgaa 
gccgaaagt gaggcgcaa gtcgataca acggtttag
    mRNA sequence
    • >TC034322 RA
      atgtcagcc gttttgtgt aaaaattcg tccagcatg 
gaatcgagt taacaagtc gtaatttag tgccggtat 
tgtttaatg accaaaaca aaaccacca gcgaatacg 
tttcgtaat ttgggcaaa aacacaacc aacaatggg 
ctcgtattt atcagaacc ggccaccga gaaagagtc 
caccgacga caccaacgg caaattaac ttatggggc 
aagctctat gcagggctg gcgtatgac ccaagagga 
cgcacataa ctgtatctt aaactacga cgaggacac 
ttcgttttt cgccgtcta cgacggaca tgggggcca 
ggaagtggc ccagtattg ctcggacaa gctcccgga 
cttcatcaa gaacacgcc cgagtacaa ggagggaaa 
catcgagga ggcgctcgt ttcgggctt tttgaggtt 
tgacgcgct cattgccac gccagaagt tgtggagga 
attgaggaa aatcgccga tgataagga cgagaacga 
gagcgacga agaggaaaa tgttaacaa tttgtacga 
agaggcggc catgcccat tgagcaagt tattgaaaa 
gtacacctc taacttgtc taatccggc ggtgaaaag 
tttaaaaag ggacattaa atcgccctt tttgaccgc 
caaaacaga cagtgaccc cacggtagg cacctcctc 
agcgggctc ctgctcgag ctccacgag ccaaggcgg 
cgacggcgt cagcagctc cagcgaggc gggacttaa 
ggataagac agaagagga gaacaagcc ggagaccaa 
cggtcctgg cgaagtttc cgacgaaaa acccaacag 
ttcagaggt taaagacga agcccaggc taagagtga 
cgtcacgag ttcatcaac acctgttga aaatggcac 
gccgtcaaa aaagggtaa aggaaaggc agtcattaa 
accagaacc tgtaaaaac accaacaaa cacacgacc 
aaaacggac ggcacaaca gttgtataa aaactggtt 
gaattgtgg agaggaaga gagtgacag cagcgacga 
agaagacca aacatttga gggtccaaa tgaggagag 
ctcggagga cgaaaatga gggcgttaa catcgcaat 
tgacgcgga gggctctga ggaagagag ttcggaaga 
agaggagga ggaagatga ggacgagga agacgatga 
cagtgaaga tgcagatgt cagaacctt taaagaaga 
gccagggtc tgacagtgg ctgcacggc agttgtggc 
gttgttaaa aggcaacca gttgtacgt agccaacgc 
cggggattc ccgttgcat agtgtgtcg gaatggcaa 
accaataga gatgagtat agaccacaa gccggagga 
caagcccga gagaaaaag gatacagaa agcaggggg 
cgaagtgac atgggaggg ccgtgtcaa cggcggcct 
aaacctctc acgggccat tggagacca cgcatacaa 
gcaaaacaa gaacctatc agaccgtga acaaatgat 
cacagcttt gcccgacat caagacttt aacgattaa 
tccagagga agacgagtt catgtttct tgcgtgcga 
cggaatctg gaatgcgat gtcaaacga gaaggtcgt 
agccttcat caggccacg tcttcaaga caatacgaa 
gaaattatc ccaaatctg cgaagagat gttcgacca 
tattctggc acctgacac ggtgtggga caatgccgg 
gagtgacaa catgaccgc aattatcgt aaaattcaa 
gtcacacaa aagaccaat ttcgccttc acagacgga 
agaaagcgc agcgaaacg gacaaagag cgaagccga 
aagtgaggc gcaagtcga tacaacggt ttagatttc 
tttattttt aaaaacggt tttttaatg aaaggtgac 
gagatcatt ttcagtttt atgctgtca ttgtctata 
tcttttgtt atcaacacc atggtgtag gtgccttct 
gttaaaatg agcactgtg gtggtaatt tttcataga 
tttgtataa tactgctgt attttttat tatgtaagg 
ttaattttt taatcccgg aagtcattt tttaattgt 
ctggggaac tgtcgattg taaacctct gtagcctat 
ttaccggta agtttgtgt atttatttt tcattgcga 
ttcagttcg tgtaataaa acaatgccg caaacgtaa 
gtatcattt aaccaattt tatccatta cgtgggcca 
gtaagccag aaacgaggt ttttagaaa gactgaaat 
aattccatt cgcagtttt gttttgata tttattttt 
gtaactggt tttctcgct ctagggact atgaaaagt 
tgaataaaa gcagttgca aataaacac tttattttt 
attagagta catagttta tcaaagatc tgtgagaaa 
caatgcgac aacaaaaac tgttacacg attagtttc 
ttcttttgt aatttaata aagtacaat aaataac

    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