Status
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Gene information
General information
TC006218 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: 5197018..5203045
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
    		TC006218
    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_04090

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment potentially partiallyfused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006218 RA
      MEPVPEFEE LMLCGYCKQ KFNDSDQSP KLLSCKHYF 
CLQCMRTNL NKGQELYCV YCWKRTEIG DLGPESLPT 
YAPVLCLTK NFSQMKLGP KPPDKPAKV ISENCHTHA 
MPLALWCHT CCAPVCRAC ATTSDHSTH QIKSQNEAK 
EQLVAELQV DLASMNKML SEIQRLAIQ QREFLLKIL 
EACVTLKTH VEADLTNNA SHFELTETR DTLAKLRLN 
LSMAENLTE VHNLYSSVS VEKQRLQLR YQEMYLQCQ 
LDDLIRNST VIFDFQLLK QALSNIHNG EMAFPGNSR 
ILPPSQQNP ILFLANYCM SQLYSRHVL TKQTVNGSL 
DYHNHNTIP PVNYHPQHL VLTTPKNIY QENNLMMQS 
VIHSPQMRN PANMCPLYY FNIEVNGAS VGRIVIEVR 
ADVAPKMAK NFGLLTTGE AGMGYKGCQ IFQCWEGES 
VITGDFELN NGRGGRSIF EDSYFLPDD TKLMAVRGT 
VGMRRTQKR HDNLGMVGS QFRIILQEM RGFTGIFGH 
VIEGLELVE KISTYGDTA GKPTKNILI AKCGKL
    CDS sequence
    • >TC006218 RA
      atggaaccg gtgcccgaa ttcgaggag ctgatgctg 
tgcggctac tgcaagcag aaattcaac gactccgac 
cagagcccc aaactgcta tcgtgcaaa cactacttc 
tgcctccaa tgcatgcgc accaacctg aacaagggc 
caggagctg tactgcgtg tactgctgg aagcgcacc 
gaaatcggc gacctgggg cccgagtcg ctcccgacc 
tacgccccc gtgctctgc ctcacgaag aacttctcg 
cagatgaag ctgggcccc aagcccccg gacaaaccc 
gccaaagtc atatcggag aattgccac acgcacgcc 
atgcccctg gcgctctgg tgccacacg tgctgcgcc 
cccgtgtgc cgcgcctgc gccaccacc agcgaccat 
tccacccac caaatcaaa tcgcagaac gaagccaag 
gagcagctc gtcgccgag ctgcaggtc gacctcgcg 
tcgatgaat aaaatgctc tcggagatc cagaggctt 
gcgatacaa cagcgcgaa ttcttgctg aaaatactc 
gaagcctgc gttacgcta aagacgcac gtcgaggcc 
gatttgacc aacaatgcg tcgcacttt gaactgacc 
gaaaccaga gacacttta gccaaacta cgactgaac 
ctatccatg gctgagaac ctaaccgaa gtccacaac 
ctctactcg agtgtctcc gtcgagaaa caaagacta 
cagttacgg taccaagaa atgtacctc caatgccaa 
ctcgatgac ttgatccgg aactcgacc gtgatcttc 
gatttccaa ctactcaag caggctttg agcaacatc 
cacaacggc gagatggca ttcccgggg aactcccga 
atcctcccg ccttcgcag caaaacccg atacttttc 
cttgcaaac tattgcatg tcccaactt tactcgcgt 
cacgtttta accaaacaa accgtcaac ggaagtctc 
gattaccac aaccataat accatcccc cctgttaac 
taccacccc caacattta gtcctaacc acgccgaaa 
aacatctac caggagaac aatctaatg atgcaaagc 
gttatacac tcgccacaa atgcgcaac ccagccaat 
atgtgcccc ctttactac ttcaacatc gaggtgaat 
ggggcgtcc gttggccgg attgttatc gaagtgcga 
gcggatgtg gcaccgaaa atggccaaa aatttcggc 
ctattgacg acaggcgag gccggaatg gggtacaaa 
ggatgccag attttccaa tgttgggag ggggagagt 
gtgataacg ggggatttt gagctgaat aatggacga 
ggggggcgt tcgattttc gaagactct tattttttg 
ccagatgat accaagttg atggccgtg agggggacg 
gtgggcatg aggcggaca cagaaacga cacgacaat 
ttaggaatg gtggggtcg cagttccgg atcatattg 
caggagatg cgggggttc actggtatt ttcgggcac 
gtgatcgaa ggcctcgaa ttggtggaa aagatcagt 
acgtatggg gacacggcc ggaaaaccg accaaaaac 
atacttatc gcaaaatgc ggcaaatta taa
    mRNA sequence
    • >TC006218 RA
      cggttagtc gtcaacatg atgtggcac atcgttcgg 
cggccacaa taactttaa gttttttcg taaatctgc 
cgatcttgt cggcacgaa acaattatg taatataaa 
tctcgatta gttaatgca tcgtacacc gaacccgtt 
ttaaacgca aaatagtac aaacacgcg aaaaccgtt 
gccgaaaca ccgagtttt tataaacga cgacaattc 
agacacaca cacacacac aacaaacga cgaccaaaa 
acaagcgta tccctcgtt ttatcggat ttactcaaa 
ggctgtgct acacatcgt aaacaaaaa acataaaaa 
tttaataaa aaacgaaac gaagaatgg aaccggtgc 
ccgaattcg aggagctga tgctgtgcg gctactgca 
agcagaaat tcaacgact ccgaccaga gccccaaac 
tgctatcgt gcaaacact acttctgcc tccaatgca 
tgcgcacca acctgaaca agggccagg agctgtact 
gcgtgtact gctggaagc gcaccgaaa tcggcgacc 
tggggcccg agtcgctcc cgacctacg cccccgtgc 
tctgcctca cgaagaact tctcgcaga tgaagctgg 
gccccaagc ccccggaca aacccgcca aagtcatat 
cggagaatt gccacacgc acgccatgc ccctggcgc 
tctggtgcc acacgtgct gcgcccccg tgtgccgcg 
cctgcgcca ccaccagcg accattcca cccaccaaa 
tcaaatcgc agaacgaag ccaaggagc agctcgtcg 
ccgagctgc aggtcgacc tcgcgtcga tgaataaaa 
tgctctcgg agatccaga ggcttgcga tacaacagc 
gcgaattct tgctgaaaa tactcgaag cctgcgtta 
cgctaaaga cgcacgtcg aggccgatt tgaccaaca 
atgcgtcgc actttgaac tgaccgaaa ccagagaca 
ctttagcca aactacgac tgaacctat ccatggctg 
agaacctaa ccgaagtcc acaacctct actcgagtg 
tctccgtcg agaaacaaa gactacagt tacggtacc 
aagaaatgt acctccaat gccaactcg atgacttga 
tccggaact cgaccgtga tcttcgatt tccaactac 
tcaagcagg ctttgagca acatccaca acggcgaga 
tggcattcc cggggaact cccgaatcc tcccgcctt 
cgcagcaaa acccgatac ttttccttg caaactatt 
gcatgtccc aactttact cgcgtcacg ttttaacca 
aacaaaccg tcaacggaa gtctcgatt accacaacc 
ataatacca tcccccctg ttaactacc acccccaac 
atttagtcc taaccacgc cgaaaaaca tctaccagg 
agaacaatc taatgatgc aaagcgtta tacactcgc 
cacaaatgc gcaacccag ccaatatgt gcccccttt 
actacttca acatcgagg tgaatgggg cgtccgttg 
gccggattg ttatcgaag tgcgagcgg atgtggcac 
cgaaaatgg ccaaaaatt tcggcctat tgacgacag 
gcgaggccg gaatggggt acaaaggat gccagattt 
tccaatgtt gggaggggg agagtgtga taacggggg 
attttgagc tgaataatg gacgagggg ggcgttcga 
ttttcgaag actcttatt ttttgccag atgatacca 
agttgatgg ccgtgaggg ggacggtgg gcatgaggc 
ggacacaga aacgacacg acaatttag gaatggtgg 
ggtcgcagt tccggatca tattgcagg agatgcggg 
ggttcactg gtattttcg ggcacgtga tcgaaggcc 
tcgaattgg tggaaaaga tcagtacgt atggggaca 
cggccggaa aaccgacca aaaacatac ttatcgcaa 
aatgcggca aattataat cggcttgaa tcgaaacac 
ttgatgtct aatcaaact ttgcttaaa gaaaaaaac 
acaaaaaaa tcatatatc tagatgttt tatatgtag 
cttcaagca acagtgcgt agttgatca cgagatgaa 
aacgtaatg ataccgtct tagcttaat agtactatc 
gaattccga aataactat attttcgta tcgtatcaa 
atatcgtat ataaaaaat gaaaagtac gcgatattt 
tttattgtt gtcgttttt cagcaaggg acgttttta 
gcttaataa gtgtctatg ttatgtttg tttcctggt 
gcggtagaa atgttaaag attacagag tttaaaaaa 
aatcccgga acgtcagga attgcactt ggctttttt 
tggtacctt atagactta gtttcgaac cgaaatctg 
gtttgggtt catcggacg tgaagaaat ctccctgtt 
ttttagtgt ttttcatta tattacatg aatataact 
agattaagt acggtaatt cggtaaatt gttaatttg 
gcaatttgt acgttcaaa ccgatcagc tcgatcgac 
tgtggtcgg tttcaacgc acaagctcc caatttggt 
cctagtttt aagttaatt aattagtcg caaccgggt 
atatttatc gaagattaa tataacatg ctagatcgc 
tgtcaatgt tatgatata aaaatcatt tgaaaaaag 
aggcaaata aaatctata tttttaacg ttctcttcg 
ttcattctt ttaactgtc tgtcgtaac taactattt 
gggatacaa acgaatata caacgaatt taaatcaca 
aggggattg tccgagtgc atatcaatt tgatttttt 
ctagtgtag agtggtatc gtctcattt tgccggaat 
ttttttgtg ccttaatat tgttttttt tttggtcat 
ccaatagtt tagtttagg tcttcccaa tgtatcctg 
cctacgtcg gaactcctg gatgccaca acttcaaaa 
ataatcaaa attaccgtt tcgcaaatc agtggcgta 
acgattgtt tttgtcgca gacaccaat aaatgttga 
taatacaca tcgagatta atttgggtc aacactgcc 
ataaaatct aaacttggc aagccgtcg aggtgcaaa 
tagtccaga aggctgttt ccatctgct acctgtcaa 
tccaaacaa aacaacgaa atctattcg ttgacaaat 
aaatatcac aaagattg

    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