Status
Please wait ...
Gene information
General information
TC002308 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_015451937.1: 700327..707520
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
    		TC002308
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03349

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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: % (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
    • >TC002308 RA
      MSSSFFHFI LVILTNLCV TQSHVSVKE VFKKDGDVN 
VALILHNDC NSTTVLTQQ EQSLVNSAI WTVHQLNYS 
EIITFGLSI YKACNEKEE YQTVFELFQ KQDENFLLG 
LISTSLKPQ IRKLCDALD LVIQPTVKC PTPLVEASI 
ELLKRLNWI ENVTVIAPN EFILNEFAI ISRKKWICV 
RDFVTYKSF VPSRNYTNE YIVIFANTI VFKTFVENS 
NTSNIIFVP EDDFVQNDL PENSYVISS KSFNTEQNV 
YTPTPQLFE VAIPLVNYA QNLNNENCN ETNYKQCLK 
TSCTVPQTI LDPTEIAKL LKIEPSSIN YFIYKSENL 
TLNKLFAYN LFTNNLTML EPIDLNQTM LSCLAVKDG 
CRQQCKNFH SQMKLISSN CDIRIRTES WIFAFLSLS 
LLGVLFCIA ILVFLLVSV CRKNVLEGN PVLTILLLF 
TVMVMFCSI VPLSLEGNR WAKRSICMA RALSITLSF 
AAAFSLMLS RSIVLATAS KEIGFMSHV AGPVQSFLC 
LFIFGVQAA LSLQVFNHC EDIFRGHSF IYILSYNII 
LLLLLLCFC PLIFKSQRN YREGKYFTF ATIITSLLW 
CFWVPAYLL LGDYYKDSV LCFGLVSTA SVLLATIFV 
PRTYLMTIA AARDKITST LPSLASATS AMDIYRTGA 
QPVYDCVNV AAINAVRVA AIQHPDLYS CPNLPEDEF 
DLRCETPVA DDKVTRF
    CDS sequence
    • >TC002308 RA
      atgagttcg agttttttc cactttatc ttagtcatc 
ttaacgaat ttgtgtgtc acacaatca catgttagt 
gttaaggaa gtattcaaa aaggacgga gacgtcaat 
gtagccctt attttacac aacgattgt aacagcaca 
acagttcta acacagcaa gagcaatcg ttggttaat 
tcggcaatt tggacagtg catcagttg aattattcc 
gaaattatc acttttggt ttgtcgatt tacaaggct 
tgcaacgag aaagaagaa taccaaact gtgtttgaa 
ctgttccaa aaacaagac gaaaatttt cttttggga 
ctaattagc acgtcgtta aagccacaa attcgaaaa 
ctttgtgat gcactagat ttggttatt caaccgact 
gtgaagtgt cctacaccg ttagttgaa gcttcaatt 
gagttgtta aaacgtcta aattggatt gaaaatgtg 
accgtgatt gctcccaat gaattcatt ctaaatgag 
tttgcaatt atttcacgg aaaaagtgg atctgcgtt 
agagatttt gtaacatac aagtcgttt gtaccctca 
cggaactac acaaacgaa tacattgta atttttgca 
aacactata gttttcaaa acattcgtt gaaaattcc 
aacacatca aatatcata tttgttcct gaggacgat 
tttgttcaa aatgatcta cccgaaaac agctacgtc 
ataagcagc aaatccttc aacaccgaa caaaatgtt 
tacactccc acacctcaa ctattcgaa gtcgcaatc 
cctcttgta aactacgct caaaactta aacaatgaa 
aactgcaat gaaacgaat tacaaacag tgcctcaaa 
accagttgc actgtcccc caaacaatt ctagaccca 
actgaaatc gcaaaactg ctcaaaatt gaaccgtcc 
agtattaat tatttcatc tacaagtct gagaacttg 
acactcaac aaactgttc gcctataac ctttttacg 
aacaactta acaatgcta gaacccatc gatttgaac 
caaacgatg ttaagttgc cttgcggtc aaagacggt 
tgtcgtcaa caatgcaaa aactttcac agccaaatg 
aaactaatt tcctcgaac tgcgatatt cggatacga 
accgaatcg tggattttt gccttcttg tcactatct 
ctactgggt gttttgttt tgcattgca attttagtt 
tttctctta gtttcagtt tgtcgtaaa aatgttctt 
gaaggcaat cccgtcttg acaattcta ctgttgttc 
actgtaatg gtcatgttt tgctcaatc gttccgttg 
tctttagaa ggcaatagg tgggccaaa cgttcgatt 
tgtatggca cgtgctttg tccataacg ctcagtttt 
gcagcagca ttttcccta atgctcagt cgcagcatt 
gttttagca acagcttcc aaagagatc gggttcatg 
tcacacgtt gctggtcca gttcagagt tttttgtgt 
ctttttatt tttggggtc caagcagct ttgagtttg 
caagtcttt aatcactgc gaggatatt ttcagaggc 
cattcgttc atttacatt ttatcatac aatataatt 
ttgcttctt ctcctcttg tgtttctgt cccttgatt 
tttaaatct cagaggaac tatcgcgag ggcaaatat 
ttcacgttc gccacaatt atcacctcc cttttgtgg 
tgtttctgg gtcccggct tatttactc ctcggtgat 
tattacaaa gattccgtt ctttgcttc ggtttggtg 
tccacagcc agtgttctc ctggccaca attttcgtt 
ccacgtact tatttgatg acaattgcc gcagctcgt 
gacaagatc acaagcact ttaccgtct cttgcttca 
gctacaagt gcgatggat atttacagg accggagcg 
cagccggtt tatgactgt gtcaatgtg gccgcaatt 
aatgcggta agagtggca gctattcag catccagat 
ctctattct tgtccgaat ttgccggaa gatgagttt 
gatttgagg tgcgaaacg ccggttgcg gatgataaa 
gtgacgagg ttttga
    mRNA sequence
    • >TC002308 RA
      ttatttctg agtcacaca gtggggtgg atgggtttg 
aacaaggtc ctctattta gtccattaa aaaccgaaa 
aaacaagaa attgtgcat tgatgcgtt agccggaaa 
cggaaaagc atttgtgcc attgtattt ccatataac 
acacacaga cgtgaattt aggtgtcag tgaaatgag 
ttcgagttt tttccactt tatcttagt catcttaac 
gaatttgtg tgtcacaca atcacatgt tagtgttaa 
ggaagtatt caaaaagga cggagacgt caatgtagc 
ccttatttt acacaacga ttgtaacag cacaacagt 
tctaacaca gcaagagca atcgttggt taattcggc 
aatttggac agtgcatca gttgaatta ttccgaaat 
tatcacttt tggtttgtc gatttacaa ggcttgcaa 
cgagaaaga agaatacca aactgtgtt tgaactgtt 
ccaaaaaca agacgaaaa ttttctttt gggactaat 
tagcacgtc gttaaagcc acaaattcg aaaactttg 
tgatgcact agatttggt tattcaacc gactgtgaa 
gtgtcctac accgttagt tgaagcttc aattgagtt 
gttaaaacg tctaaattg gattgaaaa tgtgaccgt 
gattgctcc caatgaatt cattctaaa tgagtttgc 
aattatttc acggaaaaa gtggatctg cgttagaga 
ttttgtaac atacaagtc gtttgtacc ctcacggaa 
ctacacaaa cgaatacat tgtaatttt tgcaaacac 
tatagtttt caaaacatt cgttgaaaa ttccaacac 
atcaaatat catatttgt tcctgagga cgattttgt 
tcaaaatga tctacccga aaacagcta cgtcataag 
cagcaaatc cttcaacac cgaacaaaa tgtttacac 
tcccacacc tcaactatt cgaagtcgc aatccctct 
tgtaaacta cgctcaaaa cttaaacaa tgaaaactg 
caatgaaac gaattacaa acagtgcct caaaaccag 
ttgcactgt cccccaaac aattctaga cccaactga 
aatcgcaaa actgctcaa aattgaacc gtccagtat 
taattattt catctacaa gtctgagaa cttgacact 
caacaaact gttcgccta taacctttt tacgaacaa 
cttaacaat gctagaacc catcgattt gaaccaaac 
gatgttaag ttgccttgc ggtcaaaga cggttgtcg 
tcaacaatg caaaaactt tcacagcca aatgaaact 
aatttcctc gaactgcga tattcggat acgaaccga 
atcgtggat ttttgcctt cttgtcact atctctact 
gggtgtttt gttttgcat tgcaatttt agtttttct 
cttagtttc agtttgtcg taaaaatgt tcttgaagg 
caatcccgt cttgacaat tctactgtt gttcactgt 
aatggtcat gttttgctc aatcgttcc gttgtcttt 
agaaggcaa taggtgggc caaacgttc gatttgtat 
ggcacgtgc tttgtccat aacgctcag ttttgcagc 
agcattttc cctaatgct cagtcgcag cattgtttt 
agcaacagc ttccaaaga gatcgggtt catgtcaca 
cgttgctgg tccagttca gagtttttt gtgtctttt 
tatttttgg ggtccaagc agctttgag tttgcaagt 
ctttaatca ctgcgagga tattttcag aggccattc 
gttcattta cattttatc atacaatat aattttgct 
tcttctcct cttgtgttt ctgtccctt gatttttaa 
atctcagag gaactatcg cgagggcaa atatttcac 
gttcgccac aattatcac ctccctttt gtggtgttt 
ctgggtccc ggcttattt actcctcgg tgattatta 
caaagattc cgttctttg cttcggttt ggtgtccac 
agccagtgt tctcctggc cacaatttt cgttccacg 
tacttattt gatgacaat tgccgcagc tcgtgacaa 
gatcacaag cactttacc gtctcttgc ttcagctac 
aagtgcgat ggatattta caggaccgg agcgcagcc 
ggtttatga ctgtgtcaa tgtggccgc aattaatgc 
ggtaagagt ggcagctat tcagcatcc agatctcta 
ttcttgtcc gaatttgcc ggaagatga gtttgattt 
gaggtgcga aacgccggt tgcggatga taaagtgac 
gaggttttg aggtcatga attgtttgc acaataatg 
gaaaaagga caggatgtg taatttaca ttacgaact 
gtttccgtc aaagggatc agattaaaa cattatttt 
atcgtggca tcaactcac cctggagaa agtatacag 
tgttattca cgtgagacg tcgagcgtt ttaaaaatt 
aaattaaac taagctgat ttttaataa atctatttt 
tcgagcgtt atatttaaa attgtgtaa agaatgtat 
tttgattgt atattactt actttttta aggctcgac 
atgttacgc gaatagcac tgtagataa ttgtcaagg 
tcacaaatc cagatttta ggttgagaa gagtaaatt 
atttagggt gtgtatatt atttaaaac ctttataaa 
ataagtgtc agtactaat tgtaaaaac aatacaaat 
tttatgtga aa

    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