Status
Please wait ...
Gene information
General information
TC004772 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: 6772265..6779621
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
    		TC004772
    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_03842

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 20.0% (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
    • >TC004772 RA
      MSGPDVDEV LNYLSIKFN KIFCDREFV CCVIEDFQA 
VLGNKARIC VLVFPTLGP IYLKALRYQ ARIFDLAVF 
NITSASGKF RSLAVCHKD HLKKQSKEE AMPESSKRK 
RPERQLYVP PAQRGARKS DKKVTEPVP KPSAISDEC 
LLNLSDVLL LYHNFIKIY QLVLSDVYW DLNQFQVIK 
PGFYFQTCP VYDFENLQT VAEKPSAVL VDQEVSDFA 
QVVNGLPEF ENSLYRIEC DNVCDSENC IVDLSVIGL 
GHFFIISME NSDYFYECQ EQHDPSICC ANVRNQLAT 
SKKLERLHI SAIKSENET NKNGTPKSN KDVIKNQIN 
MNKKKVSDN THEQEKEIM RMTKEYINR KTRPIMKYV 
DDSNDTLRI DKSDSVNNW EDLFDDNGQ IQEELLTEI 
VDKVGDDIT IVKASEDYT AYTNKPPEE LEHVVELYN 
FPPTLETHD LVQAFSEIN SDAMYIKWV DDTHALLVL 
GSLSQAQKA VSMRNPLIK VRPMTAASA ISMDVANKS 
DLKPAMKRP PTNLQTARR LITSHLGTK SKLTKEQIA 
KEKQDLKNA REMKRMLKQ NEKDAWEGN LRSSVN
    CDS sequence
    • >TC004772 RA
      atgagcggg cccgatgtg gatgaggtg ctaaactac 
ttgtcgata aaattcaac aaaatcttc tgtgatcgg 
gagttcgtg tgttgtgta attgaagac ttccaggca 
gttttgggg aataaggcc cgaatttgt gtcctcgtc 
ttcccaacg ttggggcca atctacctt aaagcgctt 
cgctaccaa gcgaggatt ttcgacttg gctgtcttt 
aatataact tcggcctcc ggcaagttc aggtcgctt 
gcagtatgc cataaggac catttaaag aagcaaagc 
aaagaagaa gcaatgcca gaatcatcc aaacgcaaa 
cgtccagaa cgccagctc tacgtaccc ccagcacag 
aggggggcc cgcaaaagt gacaaaaaa gtgaccgaa 
cccgttccc aaaccgagt gcaatcagt gacgagtgt 
ttgctaaat ctgagtgat gtgcttttg ctgtatcac 
aacttcatc aaaatttac caactggtt ctgagcgac 
gtctattgg gatttaaac cagttccag gtcataaaa 
ccggggttt tattttcaa acttgccca gtttatgat 
tttgaaaac cttcaaacc gtggctgag aaaccttca 
gccgtttta gtcgatcaa gaagtgagc gattttgca 
caagtcgtg aacggattg cctgaattt gaaaatagt 
ctatacaga atagagtgt gataatgtt tgtgattct 
gaaaattgc atagtggat ttatcagtg ataggatta 
ggacatttc ttcattatt tcgatggaa aatagtgat 
tatttttac gagtgccaa gagcaacac gacccatct 
atttgctgt gcaaatgtt cgaaaccag ttagcaact 
agtaaaaaa ttagagaga ttacacatt agtgcaata 
aagagcgaa aatgaaacg aataaaaac ggaacacca 
aaaagcaac aaagacgtt atcaaaaat caaataaac 
atgaataag aaaaaagtg tcggataac acccacgaa 
caggagaag gagataatg cgaatgact aaggaatac 
atcaatcgg aagactcgg cctattatg aaatatgtg 
gacgattct aacgacacg ttacgcatt gataagagc 
gacagtgtc aataactgg gaggacctc tttgatgac 
aacggccag attcaggaa gaattactg actgaaatc 
gttgataag gtcggcgat gatataaca atagtgaaa 
gccagcgaa gactacacg gcttacaca aacaagccc 
ccggaagag ctggagcac gtagttgaa ctttacaac 
tttcctcca accctcgaa acccacgat ttggtccaa 
gctttcagc gagattaac agcgatgcc atgtacata 
aaatgggtc gacgatacc catgctttg cttgtttta 
ggctctctt agccaagct caaaaagcg gtgagtatg 
cggaacccc ctgatcaaa gttcgtcca atgaccgca 
gcgagcgct atatccatg gatgtggcc aacaagtcg 
gatttaaaa ccggcgatg aaacgtcca ccgactaat 
ttgcagact gcgaggaga ttaatcact tctcattta 
ggtaccaaa agtaaatta acgaaagaa cagatcgcg 
aaagaaaaa caggatttg aaaaacgcc agagaaatg 
aaacggatg ctcaaacaa aacgaaaaa gacgcctgg 
gagggcaat ctgcgatcg tcagtcaac tag
    mRNA sequence
    • >TC004772 RA
      tttcaattt catttccac aaaattcac atgacattg 
cacgtttgt tattacgtt ttatcgttt tttgtttgt 
gtttaaata aataaaagt acaaaaaca atgaccttt 
ggctattat gagcgggcc cgatgtgga tgaggtgct 
aaactactt gtcgataaa attcaacaa aatcttctg 
tgatcggga gttcgtgtg ttgtgtaat tgaagactt 
ccaggcagt tttggggaa taaggcccg aatttgtgt 
cctcgtctt cccaacgtt ggggccaat ctaccttaa 
agcgcttcg ctaccaagc gaggatttt cgacttggc 
tgtctttaa tataacttc ggcctccgg caagttcag 
gtcgcttgc agtatgcca taaggacca tttaaagaa 
gcaaagcaa agaagaagc aatgccaga atcatccaa 
acgcaaacg tccagaacg ccagctcta cgtaccccc 
agcacagag gggggcccg caaaagtga caaaaaagt 
gaccgaacc cgttcccaa accgagtgc aatcagtga 
cgagtgttt gctaaatct gagtgatgt gcttttgct 
gtatcacaa cttcatcaa aatttacca actggttct 
gagcgacgt ctattggga tttaaacca gttccaggt 
cataaaacc ggggtttta ttttcaaac ttgcccagt 
ttatgattt tgaaaacct tcaaaccgt ggctgagaa 
accttcagc cgttttagt cgatcaaga agtgagcga 
ttttgcaca agtcgtgaa cggattgcc tgaatttga 
aaatagtct atacagaat agagtgtga taatgtttg 
tgattctga aaattgcat agtggattt atcagtgat 
aggattagg acatttctt cattatttc gatggaaaa 
tagtgatta tttttacga gtgccaaga gcaacacga 
cccatctat ttgctgtgc aaatgttcg aaaccagtt 
agcaactag taaaaaatt agagagatt acacattag 
tgcaataaa gagcgaaaa tgaaacgaa taaaaacgg 
aacaccaaa aagcaacaa agacgttat caaaaatca 
aataaacat gaataagaa aaaagtgtc ggataacac 
ccacgaaca ggagaagga gataatgcg aatgactaa 
ggaatacat caatcggaa gactcggcc tattatgaa 
atatgtgga cgattctaa cgacacgtt acgcattga 
taagagcga cagtgtcaa taactggga ggacctctt 
tgatgacaa cggccagat tcaggaaga attactgac 
tgaaatcgt tgataaggt cggcgatga tataacaat 
agtgaaagc cagcgaaga ctacacggc ttacacaaa 
caagccccc ggaagagct ggagcacgt agttgaact 
ttacaactt tcctccaac cctcgaaac ccacgattt 
ggtccaagc tttcagcga gattaacag cgatgccat 
gtacataaa atgggtcga cgataccca tgctttgct 
tgttttagg ctctcttag ccaagctca aaaagcggt 
gagtatgcg gaaccccct gatcaaagt tcgtccaat 
gaccgcagc gagcgctat atccatgga tgtggccaa 
caagtcgga tttaaaacc ggcgatgaa acgtccacc 
gactaattt gcagactgc gaggagatt aatcacttc 
tcatttagg taccaaaag taaattaac gaaagaaca 
gatcgcgaa agaaaaaca ggatttgaa aaacgccag 
agaaatgaa acggatgct caaacaaaa cgaaaaaga 
cgcctggga gggcaatct gcgatcgtc agtcaacta 
ggttaagtt ttgtgattt gtgcttaaa tgtgtacct 
agagtcaaa tttatagtc attttttgt agtttttac 
aagtttttg gttaccaag atacgtagg taatgtttt 
atttattgt tttgtactc tttttttgc ttcctgtgg 
aataagaga agtttgagg aagtgacct taatatttt 
attttgtga tattcaaca ttttagaaa aatattctc 
tacatttgc gaacatctc aggatcgat cataatttg 
gttatgtgt tctttgaaa ctgaatata ttttattta 
ctctt

    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