Status
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Gene information
General information
TC001867 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_007416.3: 493730..503940
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
    		TC001867
    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
    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_03261

    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: 30.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

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

    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: % (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
    • >TC001867 RA
      MSSGRGLIG RRRGGNTWL RTGLIIFII IFISLQINF 
LSYRGSSDS NSELNDSNA AILSMVPAV LHKFLTPRP 
RNVSSSLGL NGTTGANAA YSKWTLNIS DIKRNIAQY 
NLQQTVYNE DIFGPLQND SVVIVIQIH DRITYLRHL 
IVSLAQARG ISQALLVFS HDYYDEEIN SLVQSVDFC 
KVIQIFYPY SIQTHPHEF PGEDPNDCP RDIKREQAL 
IQKCNNALY PDLYGHYRE AKFTQTKHH WWWKANRVF 
NQLEITRNH TGLVVFLEE DHYVAEDFI YILKLMERT 
CKESCKHCN ILSLGTYLK TFNYYGDAK KKEALRAIK 
QQSILSAGQ VHPSWTFQV LPSLYQHSQ KVEITPWIS 
SKHNMGMAF NRSTWMDIV GCADYFCKY DDYNWDWSL 
QHISQNCLK HKFHAMVVR GPRVFHIGE CGVHHKKNN 
CESTAVISK VQQVLNTAK RHLYPNYLT LTYTTLLKK 
TKLRKGNGG WGDRRDHKL CMSMTLR
    CDS sequence
    • >TC001867 RA
      atgagcagc gggcgtggc ctaataggg cgtcgccga 
gggggaaac acatggctt cgaactgga ctaataatc 
ttcataata atttttatc tcccttcag ataaacttt 
ttaagttac cgcggttca agcgattca aattccgag 
ctaaacgat tcaaatgcg gcgatactg agtatggta 
ccggccgtg ttgcacaag ttcctaact ccaaggcct 
agaaacgtg agcagtagt ttgggccta aacggcacc 
acgggtgcc aacgcggcc tacagcaag tggacgctc 
aatatatcg gatatcaaa cggaacatc gcacagtac 
aatctccaa caaaccgtc tacaacgaa gatattttc 
gggcctttg caaaacgat tctgtagtt atagtaatc 
cagatacat gaccgcata acttatctc cgccacctt 
attgtgagt ctagcccaa gctcgcggc atttcccag 
gccctcctg gtgttctcg catgactat tacgacgag 
gaaataaac agtttggtc caaagcgtc gatttttgt 
aaagtcatc cagatattt tacccatac tcgatccaa 
acacatccg cacgaattc cctggcgag gatccaaac 
gactgtcca cgcgatatt aaacgagaa caggcccta 
atccagaaa tgcaacaat gccctctac cccgacctc 
tacggccac taccgggag gcgaaattc acccaaacg 
aagcaccac tggtggtgg aaggccaac cgggtgttc 
aaccagcta gaaatcaca aggaaccac acgggactt 
gtggtattt ttggaagag gatcattac gtagccgag 
gattttatt tacattctg aaactgatg gaacggact 
tgcaaggag tcttgcaaa cactgcaac atcctctcg 
ttgggtacc tatctaaaa acttttaat tactacggg 
gatgctaaa aagaaagag gctttgcga gctatcaag 
caacaatct attcttagc gcaggtcaa gttcatccc 
tcctggaca tttcaagtg ctgccttca ctctatcag 
cactcacag aaggtggaa attacacct tggattagc 
agtaagcat aacatgggg atggctttc aaccgctcc 
acgtggatg gatatcgta ggctgtgct gattatttt 
tgcaaatac gacgactac aactgggac tggtctttg 
caacatatt tcgcaaaac tgtttgaaa cataaattt 
catgcgatg gtggtacga ggtccaaga gtcttccat 
ataggagaa tgtggtgtg caccataag aaaaacaac 
tgtgaatcg acggctgta atttcaaaa gttcaacaa 
gtgctaaac actgctaaa agacatttg tatccgaac 
tatttaaca ctaacgtat acaacactt ttgaagaaa 
actaaatta aggaagggg aacggagga tggggggac 
cgaagagac cataaactt tgtatgagt atgacgctt 
aggtag
    mRNA sequence
    • >TC001867 RA
      tgagttcag gctcccacg gctagatgg cttgcgttt 
gtcgattgt aaaataata ttctgaaaa cactgaaga 
caggatggg agtgagtta gtttggtgg cagtggcga 
gtgtttgtt gcatgtact agagagaca gctgatagt 
taccattaa taaattttc aaaatacgg tttctagta 
aatgaaatg acataaaac tggtgtaat gtgcaacga 
ctgtataaa atctatatt atggaccga cataaagcg 
aaaaggtct cgaataaat tgttgtcat gtaataaat 
aatcgaata atagatgaa ttggtaaat aaattaaat 
aatgacgag aataacaac agcgaaagg cgcaacaat 
aaactaacg atttaaagg tcttgtgaa tctggcatg 
cactaccat gagcagcgg gcgtggcct aatagggcg 
tcgccgagg gggaaacac atggcttcg aactggact 
aataatctt cataataat ttttatctc ccttcagat 
aaacttttt aagttaccg cggttcaag cgattcaaa 
ttccgagct aaacgattc aaatgcggc gatactgag 
tatggtacc ggccgtgtt gcacaagtt cctaactcc 
aaggcctag aaacgtgag cagtagttt gggcctaaa 
cggcaccac gggtgccaa cgcggccta cagcaagtg 
gacgctcaa tatatcgga tatcaaacg gaacatcgc 
acagtacaa tctccaaca aaccgtcta caacgaaga 
tattttcgg gcctttgca aaacgattc tgtagttat 
agtaatcca gatacatga ccgcataac ttatctccg 
ccaccttat tgtgagtct agcccaagc tcgcggcat 
ttcccaggc cctcctggt gttctcgca tgactatta 
cgacgagga aataaacag tttggtcca aagcgtcga 
tttttgtaa agtcatcca gatatttta cccatactc 
gatccaaac acatccgca cgaattccc tggcgagga 
tccaaacga ctgtccacg cgatattaa acgagaaca 
ggccctaat ccagaaatg caacaatgc cctctaccc 
cgacctcta cggccacta ccgggaggc gaaattcac 
ccaaacgaa gcaccactg gtggtggaa ggccaaccg 
ggtgttcaa ccagctaga aatcacaag gaaccacac 
gggacttgt ggtattttt ggaagagga tcattacgt 
agccgagga ttttattta cattctgaa actgatgga 
acggacttg caaggagtc ttgcaaaca ctgcaacat 
cctctcgtt gggtaccta tctaaaaac ttttaatta 
ctacgggga tgctaaaaa gaaagaggc tttgcgagc 
tatcaagca acaatctat tcttagcgc aggtcaagt 
tcatccctc ctggacatt tcaagtgct gccttcact 
ctatcagca ctcacagaa ggtggaaat tacaccttg 
gattagcag taagcataa catggggat ggctttcaa 
ccgctccac gtggatgga tatcgtagg ctgtgctga 
ttatttttg caaatacga cgactacaa ctgggactg 
gtctttgca acatatttc gcaaaactg tttgaaaca 
taaatttca tgcgatggt ggtacgagg tccaagagt 
cttccatat aggagaatg tggtgtgca ccataagaa 
aaacaactg tgaatcgac ggctgtaat ttcaaaagt 
tcaacaagt gctaaacac tgctaaaag acatttgta 
tccgaacta tttaacact aacgtatac aacactttt 
gaagaaaac taaattaag gaaggggaa cggaggatg 
gggggaccg aagagacca taaactttg tatgagtat 
gacgcttag gtagttaaa tttcgcatt tggtgatat 
tgtttcgat ttttgagag ccgggactg ataggtatt 
gttttcgta aggtgcttt agttaactt actttgttt 
cacctaaaa ggcgttata tttttataa cattttgtt 
acgtttcat cttagtcaa cattttgta tctagtctt 
agttattgt tagtacgtg aaaagtcag aagctagct 
ggtttttta ccacgcaac aaactgtgt atataaatg 
tgtccattt tgttgcatc ttttctaca tactcttcc 
tgtccaatt ctataaacc tcttgccac tttctacat 
acatacact aattttatc aggaagatg ctcaactat 
tcataagtt tttacttac atgatagca agtatttgt 
ttcaattct agtcatgtc tcgtagcag gaccaaaat 
ttttgatgt caaagctta aagttgttt tacattttc 
gttaaccat gcttagcgc agtataatg ttgtaactg 
agttcagtg tccagaaac atgtaactg cgtagcgaa 
taaaccata gtcagttga

    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