Status
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Gene information
General information
TC030748 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_007423.3: 5821197..5828255
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
    		TC030748
    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_06060

    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: 40.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 3 (3 dpi)
    Days post injection

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

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

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva everted (inside-out) - 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 posterior partiallyeverted (inside-out) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030748 RA
      MELRSRSRS KTPFQTQTF INDEAFEGH NHVTRSTRR 
SVRTTVTTG GSEYYESVT KPVKSKSTT KSTRSIFKT 
SDYSSEEGE TDSHSHFSE NEKNQIIED ARKAANGTA 
EISALSLYR KAGRYWDKY PKTDYTYSP HSRDRVELA 
PGVVQMPNM SRRTIHSDS STNTESYYT TSQSIKQRL 
LSSSNNNEE IDESYTISR TSTTRRRTF TSIITSVFT 
TIYMSVFWC FLSVYETSS STMIFFGKK LHHLASLIM 
LADTWLLRK SSAPRKTGA VVALCLLPL LVFAAWFLL 
SSLGSAIYW SFTNSTSIP VEQQVAEKI ISAPPVPSP 
TQINTDEII EKILQNPKI HNIIINNHK GQESDEKFQ 
HIIEELRLE IDRIKSEQQ NQNADLGRI IAQIRTENV 
RNLARLTQK LNRCCSRQI IDLEPYITR VFTNLLNDP 
HFLSNQNGL TDWLHTLFV AKTDLENRL LNLTTNFDV 
SDAANQVME KVVGKLSKL DPSSLDETQ IRKIVQSAL 
RIYDADKTG LVDYAMERL GGEIVTTRC TESYFAGTA 
VISVLGIPI WYPSISPRT VITPGINPG ECWAFQNFP 
GLLVIKLAS RVRIEAFSL EHVSRLLVP EGKIDSAPK 
EFEVFGLNG ENDKDPVWL GEFVYDYDG DPLQFFAVR 
EPKVCSMIE IRIKSNHGN PNYTCLYRF RVHGKVSNE 
PA
    CDS sequence
    • >TC030748 RA
      atggagtta aggtcgaga tccaggtct aagacgccg 
tttcagacg caaactttt ataaatgac gaggccttt 
gaagggcac aaccatgtg acgagatcg acgagacgt 
tcggtcaga acaacggtg actactggt ggcagcgag 
tattatgaa agtgtgacc aaaccagtg aagagcaaa 
agtacaaca aaatcgacg cgttcgata tttaagact 
tctgattat tcgtcagag gaaggtgaa acagattcg 
cattcccac ttttctgaa aatgagaaa aatcagatc 
attgaagat gcaagaaag gcagctaat ggcactgct 
gagatctca gccctgagc ttgtacagg aaagcgggg 
agatattgg gacaaatat cctaagacc gattatacg 
tattcgcca cattcgcgg gatcgagtc gagctggcc 
cctggtgtg gtccaaatg cccaacatg tcccgaagg 
accatccac tcagactcc agcaccaac actgaatcc 
tactataca acgtctcaa tccatcaag caaagactg 
ctctcatcg tcaaacaac aatgaagaa atcgatgaa 
agttacaca attagtcga acctcgacc acacgaaga 
cgcacattt acatcgatc atcacttcg gtcttcacg 
accatctac atgtcggtg ttttggtgc ttcctgtca 
gtgtatgag acgtccagt tcgacgatg attttcttc 
ggtaagaag ttgcaccac ttggcgagt ctgattatg 
ctggctgat acgtggctg ctgaggaaa tcctcagcg 
ccgaggaag acgggggct gtggtggcg ttgtgtctt 
ctccccctt ttggttttt gcagcttgg tttttactg 
tcgtcactg ggcagtgcc atctattgg tcttttacc 
aacagtact tccatccct gtagaacaa caagtagca 
gaaaaaata ataagtgca ccgcctgtc ccatcaccc 
actcaaata aacacagac gaaattatc gaaaaaatc 
ctccaaaac ccaaaaatc cacaacatt attattaat 
aaccacaag gggcaagaa tctgacgag aaattccaa 
cacataatt gaggaactc cggctcgaa attgatcga 
attaaaagt gagcaacag aatcaaaat gccgatttg 
ggccgaatt attgcacaa atccgaacc gaaaacgtc 
cgaaatttg gcccgtttg acccaaaag ctgaatagg 
tgttgcagt cgccaaatc atcgatttg gaaccttac 
ataacgcgc gtttttaca aacttgctc aacgaccct 
cacttttta tcaaaccag aacggttta accgactgg 
ttacataca ctgttcgtt gcgaaaacc gatctcgaa 
aaccgtcta ctgaaccta acaaccaac tttgacgtt 
tcggatgca gccaatcaa gttatggaa aaagtggtt 
gggaagtta tccaagttg gaccccagc tcgcttgat 
gaaacgcaa atcaggaaa atcgtccaa tcagcgttg 
cgcatttac gacgctgat aaaaccgga ttggtcgat 
tacgcgatg gagcgtttg ggtggggag atcgtgact 
actagatgt accgagagt tattttgcg ggtactgcg 
gttatttcg gttctgggg attcccatc tggtatccg 
tcgatttcc ccgcggact gttatcact ccggggata 
aatccgggc gagtgttgg gcgttccag aattttccg 
ggtttgttg gtcattaag ttggcgtcg agggtgaga 
atcgaggcg ttttcgttg gagcatgtt agtcggttg 
ctggtgcct gagggtaaa attgattcg gcgccgaag 
gagtttgag gtttttggg ttgaatggg gagaatgat 
aaagatccg gtttggtta ggggagttt gtttatgac 
tatgacggt gatccgttg cagtttttc gcggttagg 
gaaccaaag gtgtgttct atgatcgag atcaggatt 
aaatcgaat catggcaat ccgaattat acttgtttg 
taccggttt agggttcac gggaaggtt agtaatgaa 
ccggcgtag
    mRNA sequence
    • >TC030748 RA
      gcatctgta cttgtacta atttttagt attatgttt 
acgttaaaa ccgttggaa tttggtttt ttttgatca 
ttaaactcg tttgaattt cggtgacgg ttgctttat 
tgtgtccat gattggtgt gttgaacgt tcggtgaag 
tctggaaat catggagtt aaggtcgag atccaggtc 
taagacgcc gtttcagac gcaaacttt tataaatga 
cgaggcctt tgaagggca caaccatgt gacgagatc 
gacgagacg ttcggtcag aacaacggt gactactgg 
tggcagcga gtattatga aagtgtgac caaaccagt 
gaagagcaa aagtacaac aaaatcgac gcgttcgat 
atttaagac ttctgatta ttcgtcaga ggaaggtga 
aacagattc gcattccca cttttctga aaatgagaa 
aaatcagat cattgaaga tgcaagaaa ggcagctaa 
tggcactgc tgagatctc agccctgag cttgtacag 
gaaagcggg gagatattg ggacaaata tcctaagac 
cgattatac gtattcgcc acattcgcg ggatcgagt 
cgagctggc ccctggtgt ggtccaaat gcccaacat 
gtcccgaag gaccatcca ctcagactc cagcaccaa 
cactgaatc ctactatac aacgtctca atccatcaa 
gcaaagact gctctcatc gtcaaacaa caatgaaga 
aatcgatga aagttacac aattagtcg aacctcgac 
cacacgaag acgcacatt tacatcgat catcacttc 
ggtcttcac gaccatcta catgtcggt gttttggtg 
cttcctgtc agtgtatga gacgtccag ttcgacgat 
gattttctt cggtaagaa gttgcacca cttggcgag 
tctgattat gctggctga tacgtggct gctgaggaa 
atcctcagc gccgaggaa gacgggggc tgtggtggc 
gttgtgtct tctccccct tttggtttt tgcagcttg 
gtttttact gtcgtcact gggcagtgc catctattg 
gtcttttac caacagtac ttccatccc tgtagaaca 
acaagtagc agaaaaaat aataagtgc accgcctgt 
cccatcacc cactcaaat aaacacaga cgaaattat 
cgaaaaaat cctccaaaa cccaaaaat ccacaacat 
tattattaa taaccacaa ggggcaaga atctgacga 
gaaattcca acacataat tgaggaact ccggctcga 
aattgatcg aattaaaag tgagcaaca gaatcaaaa 
tgccgattt gggccgaat tattgcaca aatccgaac 
cgaaaacgt ccgaaattt ggcccgttt gacccaaaa 
gctgaatag gtgttgcag tcgccaaat catcgattt 
ggaacctta cataacgcg cgtttttac aaacttgct 
caacgaccc tcacttttt atcaaacca gaacggttt 
aaccgactg gttacatac actgttcgt tgcgaaaac 
cgatctcga aaaccgtct actgaacct aacaaccaa 
ctttgacgt ttcggatgc agccaatca agttatgga 
aaaagtggt tgggaagtt atccaagtt ggaccccag 
ctcgcttga tgaaacgca aatcaggaa aatcgtcca 
atcagcgtt gcgcattta cgacgctga taaaaccgg 
attggtcga ttacgcgat ggagcgttt gggtgggga 
gatcgtgac tactagatg taccgagag ttattttgc 
gggtactgc ggttatttc ggttctggg gattcccat 
ctggtatcc gtcgatttc cccgcggac tgttatcac 
tccggggat aaatccggg cgagtgttg ggcgttcca 
gaattttcc gggtttgtt ggtcattaa gttggcgtc 
gagggtgag aatcgaggc gttttcgtt ggagcatgt 
tagtcggtt gctggtgcc tgagggtaa aattgattc 
ggcgccgaa ggagtttga ggtttttgg gttgaatgg 
ggagaatga taaagatcc ggtttggtt aggggagtt 
tgtttatga ctatgacgg tgatccgtt gcagttttt 
cgcggttag ggaaccaaa ggtgtgttc tatgatcga 
gatcaggat taaatcgaa tcatggcaa tccgaatta 
tacttgttt gtaccggtt tagggttca cgggaaggt 
tagtaatga accggcgta ggttttaac cgtttttgt 
tttgttagg tcatgtgtt cattattaa tttatttgt 
actgttgta aatacctcg tctattttc gtttcttgc 
cgtcttttt agtacttat gtgtgtttt atatctcat 
tctttttag cgtttttca ttggtattt tacttgttt 
tttatgtat taataatga aagtctgtg attcggtct 
aaactatag ttaagtaca aaaataatg ttgtaaagt 
aggtactac cggaaataa taaggcctt atgcaattt 
tgcaaacct aatcttagt cacgtgttt cagtcacta 
gttttaggg tctaatatt tatcttaag ggtcattgt 
caccgatgc acgctcatt tgtattttc gtatgtgaa 
taaagtttt tgttacgat

    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