Status
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Gene information
General information
TC003464 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: 5511480..5520708
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
    		TC003464
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03561

    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: 3 (3 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003464 RA
      MDLSSCTNW FCAKRNEKV PITSTDCHS VVTSGPGPS 
PGSSNSCDD VIPPQKNCF RLVVLGSAR VGKTCLVSR 
FLGGKFQES YTPTIEDFH RKLYRIRGE IYQLDILDT 
SGNHPFPAM RRLSFLTGD LFIIVFSMD SRETFEEAI 
RLREQILET KINAGAASN SGGLTRKKT LPRVPMILA 
GNKSDKEMK TVTAEEAQL YCDTQDSGC AFVETSAKK 
NLKVDEVFY QLFVVANLP QEMAPNHHK RISANFGAP 
CPLPPSTPS YHTKKYTLS VKRRLSDAC GVVTPNVRR 
PSIRTDLMI MRTKTCNVG DNISNPNNS PLSWRRVDS 
NCSMQ
    CDS sequence
    • >TC003464 RA
      atggatcta agctcttgt acgaattgg ttttgtgcc 
aaacggaac gagaaagtt ccaattaca tcaacagat 
tgtcattcg gtcgtaaca tcaggacct ggaccaagc 
cctggaagt tcaaattct tgtgacgac gtgatccct 
ccacaaaaa aactgtttc agattagta gttctggga 
tcagctaga gtaggcaaa acttgttta gtttcgcga 
ttcctgggt ggaaaattt caagagagc tatactccg 
accattgag gattttcac cggaagttg tatcgaatt 
agaggggaa atttaccag cttgatatt ctggacact 
tccggcaac cacccgttt cctgcaatg agaaggcta 
tcgtttctc acaggggat ttatttatt atcgtgttc 
agtatggat agccgtgag acgtttgaa gaggcaata 
agattacga gagcagata ttagaaacg aaaattaat 
gcaggggcg gcttcaaac agcggcggt ttaacgagg 
aagaaaacc ttaccgcga gttccgatg atcctagca 
ggaaataaa agcgataag gaaatgaag acagtgact 
gcagaggaa gctcaatta tactgtgac actcaagat 
tcaggctgt gcctttgta gaaacatca gccaagaaa 
aacttaaaa gtagatgaa gttttttac caattgttt 
gtggtggct aatctgccg caagaaatg gcacccaac 
catcacaaa agaatcagt gccaatttt ggggccccg 
tgtcctctg cctccttct acaccatcc taccataca 
aagaaatat acgctttcg gtgaaacgg agattaagc 
gacgcgtgt ggtgtcgtt acgcccaat gtcagacga 
ccgagtatt cggacagat ttaatgata atgaggacc 
aaaacgtgc aatgtgggc gataacatt tcgaacccc 
aataactca cctcttagt tggagacgg gtcgacagc 
aactgttca atgcaatag
    mRNA sequence
    • >TC003464 RA
      cgcaggtcg caaatgtgg acgattaat ggtgttttt 
aatttttta tcagttgaa tattcatag ctttaatac 
acggactaa aatggaggc cttcaaaaa tttcgtatt 
caataaaat tatcaaaca ttgctgact attctcatt 
caaaaatat ctgcatgag tgcatttaa aatctcgtg 
atgtactgt aacacaatt aagccgaat tatggatct 
aagctcttg tacgaattg gttttgtgc caaacggaa 
cgagaaagt tccaattac atcaacaga ttgtcattc 
ggtcgtaac atcaggacc tggaccaag ccctggaag 
ttcaaattc ttgtgacga cgtgatccc tccacaaaa 
aaactgttt cagattagt agttctggg atcagctag 
agtaggcaa aacttgttt agtttcgcg attcctggg 
tggaaaatt tcaagagag ctatactcc gaccattga 
ggattttca ccggaagtt gtatcgaat tagagggga 
aatttacca gcttgatat tctggacac ttccggcaa 
ccacccgtt tcctgcaat gagaaggct atcgtttct 
cacagggga tttatttat tatcgtgtt cagtatgga 
tagccgtga gacgtttga agaggcaat aagattacg 
agagcagat attagaaac gaaaattaa tgcaggggc 
ggcttcaaa cagcggcgg tttaacgag gaagaaaac 
cttaccgcg agttccgat gatcctagc aggaaataa 
aagcgataa ggaaatgaa gacagtgac tgcagagga 
agctcaatt atactgtga cactcaaga ttcaggctg 
tgcctttgt agaaacatc agccaagaa aaacttaaa 
agtagatga agtttttta ccaattgtt tgtggtggc 
taatctgcc gcaagaaat ggcacccaa ccatcacaa 
aagaatcag tgccaattt tggggcccc gtgtcctct 
gcctccttc tacaccatc ctaccatac aaagaaata 
tacgctttc ggtgaaacg gagattaag cgacgcgtg 
tggtgtcgt tacgcccaa tgtcagacg accgagtat 
tcggacaga tttaatgat aatgaggac caaaacgtg 
caatgtggg cgataacat ttcgaaccc caataactc 
acctcttag ttggagacg ggtcgacag caactgttc 
aatgcaata gtcaaattt caaattttc aaaacggat 
actggccag tgaccacac agcaataat tcgacttta 
tttcatttt aaagtaaaa aaattacaa agaagttat 
ctaactgta agacctttt cctatttat ttagaaaga 
cctacagtt gaaaaacca ttttacaaa agtggtcaa 
ctaactcca ttgtttgag cgaaagata aacttaatt 
attatgatt taggaaccg ggctctact tattagtaa 
tttaattca cttaggtac tacacactc agcctaggt 
gtagatgta gtgtttcac aaaaaatat gtacctagt 
atttgtgta ggtaatcgt caatagcag taataaacg 
tgttaagac tgatcaaac atattgcga tacacttgt 
tgtgaatta ttccgatta ctctagtta attttttta 
cacctagca gctaaaacc aagaaaaac aaagcaatg 
caaatttta aaatccttg attatttgg tataaatgg 
agttcactt ctaacttta tcctctcat acttaccat 
ttgtctgtg gtttggcat ttgaaaggt tttcgcaaa 
caacgaatc taattaaaa agggtttac tattcgaaa 
gcgaaaact aacaaatat tgattcaac acaaaaata 
tctttactt ttatattga aatgctctc tccatgtgt 
gtaaccacc tataaactg taagctctt cctttctct 
acctccttt ctgaccact gaaatccac ttcgtagtt 
catattgca atgttattt atgtacaat ttgtagatg 
ttaattatt attattgta gacgcgcga gagtattat 
ttaaaaagt taaacagaa agcgattac ctactgaat 
tcataatat gagggatct aacagtacc attgttata 
atttacaga tcataaaat gtctattga tttatagta 
cataaatct ataaaatgt gggcgctaa tatataaca 
tatcttttt tgctcttgt gttgtgata ttgttagca 
aatcacttt atgtaaagg atgtgaaac ccctagata 
attgcctaa tttcggaaa ctttagttt cttcaaaga 
aagtaaatc aaatttttg ataattagt atatgcttt 
atatttgaa taacagaac taatgttct gccttttat 
acagggtga gtcaattta tcggtctga aattctgaa 
atcaaatgg tactaagtg tatttttgg ttgcatcta 
agaaaattt cacaattga ttcaccctg tactacgat 
tcagaaaaa aattataat tcagtaatt taaatttag 
caataaaaa ctgttctat ttcgagaaa agtattgct 
taattaaag aaaactgtt atagatatt acacgaaat 
aaagtgctc atttgagta attgattat gaccaattt 
tattatagt ttatagaca tatgtccaa tacgtacga 
ttttgtaat ttaattagt ttacgtata tgcatccaa 
attttacaa aatattttt gattctaca aaacttaga 
aatactcaa atgtgtaat cgtaactta gttcataaa 
atgtagtct atggctatg ccacatcag ctattattt 
atactacat attataatt ttattgtta gaaatggga 
tcaggaata agaactatt ctcatttta ttttttgta 
ctagtaaac aagatgtaa agctatgag tatttgagc 
cgtatttag tgttttttt ttgtttttg tagaaggat 
tattacatc attaaaagc agcgtattg ttaagcaaa 
tgtctcaat atttgtttt gatttattg aaacatttt 
ttacttgga acgggagat aaacgatac gattattat 
catgtgtct acattctta catgtgaat taaattcat 
gtaaatcta caatcagga acaaattgt tttataaaa 
atttgtgtg aagctttaa cgtactcgt atatttaac 
tgcaatgtt ctatcgtgg ctttaaaaa cagtacttg 
tctaataat taccaacta agcat

    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