Status
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Gene information
General information
TC002347 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.

NW_015452276.1: 56632..88151
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
    		TC002347
    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
    {{ blurEvidenceResult }}
    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_03357

    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 (9 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
    • >TC002347 RA
      MSEAEGDCK ENSHPPSEN CKKSPLKSK ECKNSKLQQ 
PPKDPTRVV VVALTPDRR RETWNKKVE FLLAVVGFA 
VDLGNVWRF PYICYQNGG GAFLIPYTI MLVFGGLPL 
FYMELALGQ FHRSGCLTI WKRICPALK GIGYAICLI 
DIYMGMYYN TIIGWAVYY LIASFQAEL PWTSCHNYW 
NTKDCRPVT ALVGVNSNA SSPAKEFFE REVLEQYKS 
DGLNRMGPI KPALALCVF AVFVLVYFS LWKGVRSTG 
KAVWITALA PYVVLIILL CRGVTLPGA AEGIRYYLT 
PEWHKLNNS RVWIDAASQ IFFSLGPGF GTLLALSSY 
NKFNNNCYR DALLTSSIN CLTSFLAGF VIFSVLGYM 
AHVQHKSIE MVGLEGPGL VFIVYPEAI ATMTGSVFW 
SIIFFLMLI TLGLDSTFG GLEAMITAL CDEYPKALG 
RHREIFVAA LLFGIYICA LPTTTYGGV YLVNMLNVY 
GPGLAILFV VFVEAAGVC WLYGTDNFA RDIEKMIGH 
KPGIFWRMC WKYISPVFL LSIFIFSLL SHEQMLGTE 
YEYPEWSFK VGYALTASS IMCIPLYIV YKFAITPGS 
LVQRWKMIW KPEHSSDNS TLTYCGGTE V
    CDS sequence
    • >TC002347 RA
      atgtcggag gccgaaggc gactgcaag gagaactcg 
catcccccg agcgaaaac tgcaagaaa tcgccgctg 
aaaagcaaa gagtgcaaa aattcgaag ctgcaacag 
ccgcccaaa gaccccact cgtgttgtg gtggtggcc 
ctgactccc gaccgccgc cgagagaca tggaacaag 
aaagtggag tttctgttg gcggtggtg ggcttcgcc 
gtcgacttg ggcaacgtc tggaggttt ccctacatc 
tgctaccag aacggaggc ggtgcgttt ttgattccc 
tacaccata atgctggtg ttcggcggt ctgccgctc 
ttctacatg gagctcgct ctggggcag ttccaccga 
agcggatgt ctcacgatt tggaagcgg atttgtccg 
gcattaaaa ggaatcgga tacgcgatt tgtttgatc 
gacatttac atggggatg tactacaac accatcatt 
ggctgggct gtgtattat ttaattgcg tcgtttcaa 
gcggaactg ccgtggacg agttgtcac aactattgg 
aacaccaaa gactgtcgg cctgttacc gcccttgtc 
ggcgtcaac agtaatgcc tcaagtcct gccaaagaa 
tttttcgaa cgcgaggtg ctagaacaa tacaaatcg 
gatggcctc aacagaatg gggcctatt aagccggct 
ttggcgctg tgtgtcttt gcggtcttc gttcttgtt 
tatttctcc ctgtggaag ggcgtccgc agcaccgga 
aaggcggtg tggataaca gccttagcc ccctacgtc 
gtcctcata atcctgctc tgtcgcggg gtgaccctc 
ccgggggct gccgagggc atccgctac tacctcacc 
cccgaatgg cacaaactc aacaactcc cgcgtgtgg 
attgacgcc gcctcgcaa atttttttc tctctaggc 
cccggcttt ggcacgctc ttggccctc tccagctac 
aacaagttc aataataac tgctacaga gacgcgctt 
ttgaccagt agtatcaat tgtctgacc agttttctg 
gcggggttt gtgattttt tcggtgctg gggtacatg 
gcacacgtg cagcataaa agcatagag atggtgggg 
ctggagggg cccgggctg gtgtttatt gtgtatccg 
gaggccatt gcgacgatg actgggtcg gttttctgg 
tccattatt ttttttctt atgttgatt acgttgggg 
ttggatagc acgttcggg gggttggag gcgatgatc 
acggcgttg tgtgatgag taccccaag gcgttggga 
cggcatcgg gagattttt gtggcggcg ctcttgttc 
gggatctac atttgtgcc ttgccgacg actacttat 
gggggcgtc tatttggtg aacatgctg aacgtttac 
ggccccggc ttggccata ctttttgtc gtcttcgtt 
gaagcggca ggtgtttgt tggttgtat ggtaccgat 
aattttgca agagacatc gaaaagatg attggccat 
aagccggga attttttgg agaatgtgt tggaaatat 
atcagtccc gtttttctc ttgtcaatt tttattttt 
tcacttctc agtcacgaa caaatgttg ggcactgaa 
tacgagtat cccgagtgg agcttcaaa gttggctat 
gctttaaca gcttcgtcc atcatgtgc atccctctt 
tacatcgtt tacaaattt gcaataact ccaggaagc 
ttggtgcag aggtggaaa atgatctgg aagccggag 
cactcctcc gacaacagc accctcacg tactgcggc 
ggcaccgaa gtgtga
    mRNA sequence
    • >TC002347 RA
      ctcattagc ccacaatgt ccacaatca atacccatc 
aaatcaaaa tttgcatat tgtgtaaag ttgccacaa 
tagtcgtgc taattgctg ttattgacg cactcgtat 
ccggagtct tccggcggc ggcaggcgc aggtgcccc 
caagaaaca gcagtctct ggttggaag caagcagtg 
gttcgcacg ctccagtcc agttcgcac gtcatagca 
ggaacagaa gcagcagca ggaagtgaa gagagcacc 
agcacgcat ttccgcgcg gtcgagcat gccacctga 
caccagacc accgccact ttaaaggga tgaactcgt 
ctcctcgcc cctaatcca cctccagcg caatgtcgg 
aggccgaag gcgactgca aggagaact cgcatcccc 
cgagcgaaa actgcaaga aatcgccgc tgaaaagca 
aagagtgca aaaattcga agctgcaac agccgccca 
aagacccca ctcgtgttg tggtggtgg ccctgactc 
ccgaccgcc gccgagaga catggaaca agaaagtgg 
agtttctgt tggcggtgg tgggcttcg ccgtcgact 
tgggcaacg tctggaggt ttccctaca tctgctacc 
agaacggag gcggtgcgt ttttgattc cctacacca 
taatgctgg tgttcggcg gtctgccgc tcttctaca 
tggagctcg ctctggggc agttccacc gaagcggat 
gtctcacga tttggaagc ggatttgtc cggcattaa 
aaggaatcg gatacgcga tttgtttga tcgacattt 
acatgggga tgtactaca acaccatca ttggctggg 
ctgtgtatt atttaattg cgtcgtttc aagcggaac 
tgccgtgga cgagttgtc acaactatt ggaacacca 
aagactgtc ggcctgtta ccgcccttg tcggcgtca 
acagtaatg cctcaagtc ctgccaaag aatttttcg 
aacgcgagg tgctagaac aatacaaat cggatggcc 
tcaacagaa tggggccta ttaagccgg ctttggcgc 
tgtgtgtct ttgcggtct tcgttcttg tttatttct 
ccctgtgga agggcgtcc gcagcaccg gaaaggcgg 
tgtggataa cagccttag ccccctacg tcgtcctca 
taatcctgc tctgtcgcg gggtgaccc tcccggggg 
ctgccgagg gcatccgct actacctca cccccgaat 
ggcacaaac tcaacaact cccgcgtgt ggattgacg 
ccgcctcgc aaatttttt tctctctag gccccggct 
ttggcacgc tcttggccc tctccagct acaacaagt 
tcaataata actgctaca gagacgcgc ttttgacca 
gtagtatca attgtctga ccagttttc tggcggggt 
ttgtgattt tttcggtgc tggggtaca tggcacacg 
tgcagcata aaagcatag agatggtgg ggctggagg 
ggcccgggc tggtgttta ttgtgtatc cggaggcca 
ttgcgacga tgactgggt cggttttct ggtccatta 
ttttttttc ttatgttga ttacgttgg ggttggata 
gcacgttcg gggggttgg aggcgatga tcacggcgt 
tgtgtgatg agtacccca aggcgttgg gacggcatc 
gggagattt ttgtggcgg cgctcttgt tcgggatct 
acatttgtg ccttgccga cgactactt atgggggcg 
tctatttgg tgaacatgc tgaacgttt acggccccg 
gcttggcca tactttttg tcgtcttcg ttgaagcgg 
caggtgttt gttggttgt atggtaccg ataattttg 
caagagaca tcgaaaaga tgattggcc ataagccgg 
gaatttttt ggagaatgt gttggaaat atatcagtc 
ccgtttttc tcttgtcaa tttttattt tttcacttc 
tcagtcacg aacaaatgt tgggcactg aatacgagt 
atcccgagt ggagcttca aagttggct atgctttaa 
cagcttcgt ccatcatgt gcatccctc tttacatcg 
tttacaaat ttgcaataa ctccaggaa gcttggtgc 
agaggtgga aaatgatct ggaagccgg agcactcct 
ccgacaaca gcaccctca cgtactgcg gcggcaccg 
aagtgtgac caacgagca ttgtcaaat catacacca 
tcgagtggt tagtttaag ttgttgatt tcccatttt 
tcgggtaaa ataccagcc atattttgc ccgaactcc 
cacggatta aagggttga tttaaaacg tttcgttgt 
tttaggtgt tttgtggcg cgagtgtaa caacagcca 
ttgttacac tctcgcata ttcctagtc tagagagta 
ttaaagcgg tgctaaatg tcgtgttaa atagtccta 
gacatagct gaatgtatc gctttctat gtccggggt 
gcagcccca cgtagtgaa ctctatcat acgtaaaat 
gtacaaaat cctaaactg acaaagtta aatttatcg 
acaataaaa cgatcgggt ttgagttcg gtggtacta 
aacaaaaat cgggcctac ttttgtgat acactttct 
gggcgaaaa gcagccaag tttcggcca gaaacgagt 
tgtttcttt gtgccaatt tttggttca cttgtagca 
ctttaggaa ttgattgtc cgatcaagc taaacaatg 
gaatattaa aaaaacaaa caagtc

    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