Status
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Gene information
General information
TC001573 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_007418.3: 3473510..3478486
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
    		TC001573
    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_03210

    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: 80.0% (includes death as pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 5 (9 dpi)
    Days post injection

    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
    • >TC001573 RA
      MGKRKNQAL IDSDSSNDS TSDLDSEFL NLAKKKNRK 
KKSPRSNSD SEYEGKSDS DEGRNNKKP KRDESSDSE 
FEKKEEAKN NSEPEEGEV SDSSISDEE YNDGYDDQL 
MGDEEDRAR LASLTEKER ETEIFKRIE QRELMKTRF 
EIEKKLRQA KKAERAREK PHKHKDKEK SRDHSKLQT 
DFSSIDHKE RSKERKKNI EENRGKVDK RVNAMAELK 
ARREDKQKR EEAEEKRKE EQRKKEEED ALHTNKSNV 
KLKASDIYS DDSESEGGK SSPQPPRQS VGSVRSRSS 
SSSSSSDNE QEEEEKPAY VPTKLDMNN IRLSRHKLE 
RFVHMPFFD RIVKGCYVK IGIGQHNNM PVYRVAEVT 
NVYETAKIY NLGNTRTNK GLRVRHGNQ ERVFRLEFV 
SNQEFTETE YHKWIEAST AASNPLPTK EHIEQKQAD 
IKEALNYEF NEQDIERII REKERFKPN PHNYAMRKT 
QLMKERDSA LARGAEDLA RELTQRISD LEERASELD 
KMRTSTISS ISYINDRNR KRNVEEAEK AIMAEVKAN 
KGKKIDDPF TRRSTKPRM NFKAAPEEK AEVVVEKKP 
EKVAVEVEN PKVAAQPAQ VTQDDLFSA HDFDIKIDL 
DVPLPVASV NVTPKTVTK DLAPRRSLN LQDYKKKRG 
LI
    CDS sequence
    • >TC001573 RA
      atgggaaaa cgcaaaaat caagctttg attgacagt 
gattcgagc aatgattca actagcgat ttggactct 
gaatttttg aatttggcg aagaaaaag aacaggaag 
aagaaatcg ccaaggtct aactcggat tcggaatac 
gagggcaaa tctgacagt gatgagggt cgaaataac 
aagaaaccc aaacgagat gagtcctct gactccgaa 
tttgaaaag aaagaggag gcgaaaaat aactcagag 
cctgaggaa ggtgaagtc tcagactct tcaatatct 
gatgaagaa tataacgac gggtatgac gaccaactt 
atgggcgat gaagaagac agagcccgc ttagccagt 
ttaactgag aaagaacga gaaacggaa attttcaaa 
agaatcgag caacgagaa ttgatgaaa acgcgattt 
gagattgag aaaaagttg agacaggcg aagaaagcg 
gaaagggca cgggagaaa cctcacaag cacaaagac 
aaagagaag agcagggac cacagtaaa ctccaaacc 
gatttcagt tcaatagac cacaaggaa cgtagcaaa 
gagcggaag aaaaacatt gaggaaaat cgcggcaaa 
gttgacaaa cgtgtcaac gccatggcc gaactcaaa 
gccagaaga gaagacaag caaaagcgg gaagaagcc 
gaagaaaaa cgcaaggaa gaacagagg aagaaggaa 
gaggaagac gctctgcac acaaacaag agcaacgta 
aagttaaag gcgtcagat atttattca gatgacagc 
gaaagtgaa ggaggtaaa agttcacct cagccacca 
agacaatct gtggggtct gtcagatcc cgctcttcg 
tctagttca agttcgagt gataatgaa caagaagaa 
gaggaaaaa cccgcttat gtacctacg aaacttgac 
atgaataat attcggttg tcgagacat aaattagaa 
agatttgta catatgccg ttctttgat cgtattgtt 
aaaggatgt tacgtaaaa atcggtatt gggcaacat 
aataatatg cctgtttat cgggtggcc gaagtcaca 
aatgtttat gaaactgcc aagatttac aatttggga 
aacaccaga acaaacaag ggattgcgt gtacgacac 
ggaaatcag gagcgagtt ttccgccta gaatttgta 
tccaatcaa gaattcacc gagactgag tatcacaag 
tggatagag gccagcaca gctgctagt aatccttta 
cccacaaaa gaacacatt gaacagaaa caagccgac 
ataaaagaa gccttaaat tacgaattt aacgaacag 
gatattgaa cgaattata cgcgaaaaa gagcggttc 
aagccaaac ccccacaat tatgcaatg cgcaaaacc 
caactaatg aaagaaaga gactcagcc ctggctcgc 
ggggctgaa gatttggcg agagaatta acccaaagg 
atctctgat ttggaagaa agggcgtca gagttggac 
aaaatgaga acatcgacc atttcaagt atttcatac 
atcaacgac cggaacagg aaacgcaac gttgaagag 
gccgaaaag gcgattatg gccgaagtt aaagcaaac 
aaaggcaaa aagatcgat gacccgttc acaagacgc 
tcgacaaaa ccaagaatg aatttcaag gcagctcct 
gaagagaaa gccgaagta gtggttgag aaaaagcca 
gagaaggtt gcagtggaa gtggaaaac ccgaaagta 
gcagcgcag ccggctcaa gttactcag gacgatctc 
ttctcagct catgacttt gatattaaa attgactta 
gatgttcct ttaccagtg gctagcgta aacgttaca 
cccaaaaca gtaacaaag gaccttgct ccgagacga 
agcttgaac ttgcaagac tacaagaag aagagagga 
cttatatag
    mRNA sequence
    • >TC001573 RA
      cttgaaaaa ggaacagaa agaaatgaa aaatagtaa 
tggtggtgg cagttagtg gttgtgttg ttggatttt 
gatttaatt taaatttct gaagcaaaa ttgatcatc 
cagtttgaa atcccaaga tgggaaaac gcaaaaatc 
aagctttga ttgacagtg attcgagca atgattcaa 
ctagcgatt tggactctg aatttttga atttggcga 
agaaaaaga acaggaaga agaaatcgc caaggtcta 
actcggatt cggaatacg agggcaaat ctgacagtg 
atgagggtc gaaataaca agaaaccca aacgagatg 
agtcctctg actccgaat ttgaaaaga aagaggagg 
cgaaaaata actcagagc ctgaggaag gtgaagtct 
cagactctt caatatctg atgaagaat ataacgacg 
ggtatgacg accaactta tgggcgatg aagaagaca 
gagcccgct tagccagtt taactgaga aagaacgag 
aaacggaaa ttttcaaaa gaatcgagc aacgagaat 
tgatgaaaa cgcgatttg agattgaga aaaagttga 
gacaggcga agaaagcgg aaagggcac gggagaaac 
ctcacaagc acaaagaca aagagaaga gcagggacc 
acagtaaac tccaaaccg atttcagtt caatagacc 
acaaggaac gtagcaaag agcggaaga aaaacattg 
aggaaaatc gcggcaaag ttgacaaac gtgtcaacg 
ccatggccg aactcaaag ccagaagag aagacaagc 
aaaagcggg aagaagccg aagaaaaac gcaaggaag 
aacagagga agaaggaag aggaagacg ctctgcaca 
caaacaaga gcaacgtaa agttaaagg cgtcagata 
tttattcag atgacagcg aaagtgaag gaggtaaaa 
gttcacctc agccaccaa gacaatctg tggggtctg 
tcagatccc gctcttcgt ctagttcaa gttcgagtg 
ataatgaac aagaagaag aggaaaaac ccgcttatg 
tacctacga aacttgaca tgaataata ttcggttgt 
cgagacata aattagaaa gatttgtac atatgccgt 
tctttgatc gtattgtta aaggatgtt acgtaaaaa 
tcggtattg ggcaacata ataatatgc ctgtttatc 
gggtggccg aagtcacaa atgtttatg aaactgcca 
agatttaca atttgggaa acaccagaa caaacaagg 
gattgcgtg tacgacacg gaaatcagg agcgagttt 
tccgcctag aatttgtat ccaatcaag aattcaccg 
agactgagt atcacaagt ggatagagg ccagcacag 
ctgctagta atcctttac ccacaaaag aacacattg 
aacagaaac aagccgaca taaaagaag ccttaaatt 
acgaattta acgaacagg atattgaac gaattatac 
gcgaaaaag agcggttca agccaaacc cccacaatt 
atgcaatgc gcaaaaccc aactaatga aagaaagag 
actcagccc tggctcgcg gggctgaag atttggcga 
gagaattaa cccaaagga tctctgatt tggaagaaa 
gggcgtcag agttggaca aaatgagaa catcgacca 
tttcaagta tttcataca tcaacgacc ggaacagga 
aacgcaacg ttgaagagg ccgaaaagg cgattatgg 
ccgaagtta aagcaaaca aaggcaaaa agatcgatg 
acccgttca caagacgct cgacaaaac caagaatga 
atttcaagg cagctcctg aagagaaag ccgaagtag 
tggttgaga aaaagccag agaaggttg cagtggaag 
tggaaaacc cgaaagtag cagcgcagc cggctcaag 
ttactcagg acgatctct tctcagctc atgactttg 
atattaaaa ttgacttag atgttcctt taccagtgg 
ctagcgtaa acgttacac ccaaaacag taacaaagg 
accttgctc cgagacgaa gcttgaact tgcaagact 
acaagaaga agagaggac ttatatagt atttattaa 
tttattata tttttaaca aaataaatt ttagacctt 
aaatgttac acttaaaca ttttttatt gttaattaa 
gtttcattt tatttggaa acgcgttat aattttaca 
gtgattttt aaggaatga attaattct gtacttttg 
tagcctgtt gttagatct gtttgtgat tacgaattg 
tttcacaaa tttgaaata atagacaaa caaggaa

    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