Status
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Gene information
General information
TC011043 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_007425.3: 6184584..6190575
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
    		TC011043
    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
    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_01787

    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 (11 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    Fertility
    eggs lost during procedure: potentially due to defects in egg-shells egg-morphology or egg-size, (14 dpi)
    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: 70.0% (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: 7 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011043 RA
      MFLKSCDTC LAEFRKAYI KGACLQCDN VVRGANSPS 
KDFCSTYCM NKYQKKAEL QNRVAAVAP TTPLEASPG 
PFQYETYQP FDWDEYLKE TNSVAAPAS CFKQAVTPP 
HNEFKVSMK LEALDPRNV TSTCIATVI TVLGSRLRL 
RLDGSDNKN DFWRLVDSK EINPVGHCE KSGGMLQPP 
LGFRMNASS WPMFLTKTL NGALMAPAN IFQKEPPSP 
KCNLFQVGQ KLEAVDKKN PQLICCATV GAVKNEQIH 
VTFDGWRGA FDYWCRYDS RDIFPVGWC AKSGHPMQP 
PGQKNSTGH ARYKFKPAL TAPIPPISS TVAESPEAD 
TSAPPPPPI TIQVRKSCM GGPLIDATQ LPLTIEETT 
SKALAKSLI GKILVASHK SETILARLG ALRGEEMVI 
THQSTTYTI KLPQLSKAT DLENVFTAL ASALGCCHN 
LFSLDGMKK ECSSCDVKP SPPKRKPPP EQEAATSTT 
PGDTSASES PLASLNKIP TQEWGIEEV IQFIESADS 
CLGVHADLF RKHEIDGKA LLLLNSDMM MKYMGLKLG 
PALKICNLV SRLKGRRYN SL
    CDS sequence
    • >TC011043 RA
      atgtttttg aaatcgtgc gatacatgt ctcgccgag 
ttccgcaag gcatacatc aagggggcc tgcctccag 
tgcgacaac gtggtccgg ggcgccaac agcccctcg 
aaggacttc tgctcgacg tactgcatg aacaagtac 
cagaagaag gccgagttg cagaatcgc gtggctgcg 
gtcgccccc acgacgccg ctcgaggcc tcgccgggc 
cccttccag tacgagacg tatcagccg ttcgactgg 
gacgagtat ctcaaagag acgaactcg gtggcggcg 
cccgcgagc tgcttcaag caggcggtg acgccgcca 
cataacgag ttcaaagtg tcgatgaag ttggaggcg 
ttggatccc aggaatgtc acctccacg tgcattgcc 
acggtgatc acggttcta ggatccagg ctcaggttg 
aggctggat gggagtgat aataagaat gatttttgg 
agactggtt gactcgaag gagattaat cccgtgggg 
cattgtgag aagtcaggg gggatgcta cagccccca 
ttaggtttt cgcatgaac gcgagttcg tggccgatg 
ttcctcacg aaaacgctc aacggtgcc ctaatggcc 
cccgccaac atattccaa aaagagccc ccaagtccc 
aaatgcaac ctattccaa gttgggcaa aaactcgaa 
gctgttgat aagaaaaac ccccaattg atatgttgt 
gctacagtc ggtgcagta aaaaacgaa cagattcat 
gttacgttc gacggctgg agaggtgct ttcgactat 
tggtgccgt tacgacagc agagacatt tttccggtc 
ggatggtgc gccaaatcg gggcatccg atgcagccc 
ccgggacag aaaaacagc accggacat gccagatat 
aagtttaag ccggctttg acagccccc ataccgccg 
atttcgtcc acggtggcg gagtcgccc gaagcggac 
acttcggcg cccccgccg cccccaatc accattcag 
gtgcggaaa agctgcatg gggggcccc ctgatcgac 
gccacccag ctgccgctg acaatcgaa gaaacgaca 
tcaaaagcc ctagccaag agcctcatc ggcaaaatt 
ttagtcgct tcacacaaa tctgagacg attctagcc 
cgactgggg gcgttacga ggcgaagaa atggtcatc 
acccaccaa agcaccacc tacaccata aaattaccc 
caattatcg aaagctacc gacttggaa aacgtcttc 
acagcgctg gcgtcggca ttggggtgt tgccataac 
cttttctca ttagacggt atgaagaaa gaatgttcc 
tcgtgtgat gttaaaccg tcaccaccg aaacgcaaa 
ccgccccca gagcaagaa gcagccact tcgacaacc 
cccggcgat acttcggcc tccgaatcg ccactcgct 
agtctcaat aaaatcccc acacaggag tgggggatt 
gaagaagtg atacagttt atcgagtcg gcggattcg 
tgtctagga gtccacgcc gacttgttc cgcaaacat 
gaaatcgac ggaaaggcg ctgctgctt ctcaattcg 
gacatgatg atgaagtac atgggtctg aagctagga 
ccggcactg aaaatatgt aatttggtc tcgcggctt 
aagggcaga aggtacaat tcgctttaa
    mRNA sequence
    • >TC011043 RA
      gacgtcgtt gacattgtg atgtatttt tccgtttaa 
tcccggttt tgcgtcact accccactg caggcgccc 
ccagtggtc tttccgatg taatcggtg ccgtagacc 
gtgcgacag ttctccccc gccatgccc ccagcgccc 
gcctgattt tggaggtaa actgatgtt tttgaaatc 
gtgcgatac atgtctcgc cgagttccg caaggcata 
catcaaggg ggcctgcct ccagtgcga caacgtggt 
ccggggcgc caacagccc ctcgaagga cttctgctc 
gacgtactg catgaacaa gtaccagaa gaaggccga 
gttgcagaa tcgcgtggc tgcggtcgc ccccacgac 
gccgctcga ggcctcgcc gggcccctt ccagtacga 
gacgtatca gccgttcga ctgggacga gtatctcaa 
agagacgaa ctcggtggc ggcgcccgc gagctgctt 
caagcaggc ggtgacgcc gccacataa cgagttcaa 
agtgtcgat gaagttgga ggcgttgga tcccaggaa 
tgtcacctc cacgtgcat tgccacggt gatcacggt 
tctaggatc caggctcag gttgaggct ggatgggag 
tgataataa gaatgattt ttggagact ggttgactc 
gaaggagat taatcccgt ggggcattg tgagaagtc 
aggggggat gctacagcc cccattagg ttttcgcat 
gaacgcgag ttcgtggcc gatgttcct cacgaaaac 
gctcaacgg tgccctaat ggcccccgc caacatatt 
ccaaaaaga gcccccaag tcccaaatg caacctatt 
ccaagttgg gcaaaaact cgaagctgt tgataagaa 
aaaccccca attgatatg ttgtgctac agtcggtgc 
agtaaaaaa cgaacagat tcatgttac gttcgacgg 
ctggagagg tgctttcga ctattggtg ccgttacga 
cagcagaga catttttcc ggtcggatg gtgcgccaa 
atcggggca tccgatgca gcccccggg acagaaaaa 
cagcaccgg acatgccag atataagtt taagccggc 
tttgacagc ccccatacc gccgatttc gtccacggt 
ggcggagtc gcccgaagc ggacacttc ggcgccccc 
gccgccccc aatcaccat tcaggtgcg gaaaagctg 
catgggggg ccccctgat cgacgccac ccagctgcc 
gctgacaat cgaagaaac gacatcaaa agccctagc 
caagagcct catcggcaa aattttagt cgcttcaca 
caaatctga gacgattct agcccgact gggggcgtt 
acgaggcga agaaatggt catcaccca ccaaagcac 
cacctacac cataaaatt accccaatt atcgaaagc 
taccgactt ggaaaacgt cttcacagc gctggcgtc 
ggcattggg gtgttgcca taacctttt ctcattaga 
cggtatgaa gaaagaatg ttcctcgtg tgatgttaa 
accgtcacc accgaaacg caaaccgcc cccagagca 
agaagcagc cacttcgac aacccccgg cgatacttc 
ggcctccga atcgccact cgctagtct caataaaat 
ccccacaca ggagtgggg gattgaaga agtgataca 
gtttatcga gtcggcgga ttcgtgtct aggagtcca 
cgccgactt gttccgcaa acatgaaat cgacggaaa 
ggcgctgct gcttctcaa ttcggacat gatgatgaa 
gtacatggg tctgaagct aggaccggc actgaaaat 
atgtaattt ggtctcgcg gcttaaggg cagaaggta 
caattcgct ttaaggaag aaaagaaag tctattttt 
ccgtacttg gatgcataa attgtgtca ttgttatgt 
acctccctt agagttata tatttttta ttatcagaa 
aacattttt ttcctaatg tttgtgata cgttcaagt 
ctcgtttat cggcaatac aattgtatc gtaaattgt 
aggtttagc gactcgatt ctccgttcg tttattcca 
aattgcgca ttttccagt atttcgtta ggagctttt 
ttgtagaaa taaataaaa gtatttaat tttcttacc 
attttgatt tcattttga aaaaatgaa acgtgcatt 
tagcttagc tcttttata gacgacgca gtggatgtt 
tggcatggg gacactgct gtttgtttc aagcatttt 
taccgatta gtttaagtg ttgagattg tttaaattt 
aattctgta acagtgagt taataaaga ggaatatca 
aac

    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