Status
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Gene information
General information
TC004464 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_007417.3: 4700563..4708636
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
    		TC004464
    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_00702

    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: 40.0% (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

    adult lethality - Number of animals showing the phenotype: 3 (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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004464 RA
      MLSQSCDNN SHREFDATN SFSMAVIYS CPAHKQLLC 
SWEGYASDI KHHFEKEHC NLLSYTNFV DIDLEQLPQ 
NKLLFLDGK IYLMQNSLN DKGLVIRLR YLGSKEVAS 
KLRFNITVS VNQILYKYE PSRYFSCIV PRTGGWEIN 
LQSLQTFHQ DLKLIQCCV LIEENQRLE RKFSDVSLK 
INNKFIEKN AIDETEANY LDAINRIEN RLSFLKSNR 
NSDDFMDKI SQLNFSILE EPFQEKEDF KSDYSESLP 
NIPEEINLT CSSCALDML PPIYLCKKG HNVCSWCKA 
SPCKICSEA VTIERNRDL ENISRTHLH QCRYFSDGC 
NERLLYNEV RVHEAKCNF CKYKCSICP YLGRFDHFY 
NHLKVVHSS IKVVQTTRC SFPKNTNMF LVNKSIGIF 
YCQSETDDN CLIWRATFC GPKERQFFC EITFKGSKY 
KEAIFLKRR ENVYEIKKS IDELKKMKA KEKYAALSV 
TTYE
    CDS sequence
    • >TC004464 RA
      atgttatct caaagttgt gataacaac agtcatcgc 
gaatttgac gcaacaaat tctttttcc atggctgtg 
atttattcg tgtcccgct cataaacag ttattatgc 
tcatgggag ggttatgca agcgatata aaacaccat 
ttcgaaaag gaacattgc aatctctta tcttatacc 
aactttgtc gatattgat ctcgaacaa ctgccacag 
aataagttg ctgtttctc gatggtaaa atatacttg 
atgcaaaat agtttaaac gataaggga cttgtaata 
aggttgcga tatcttggc tccaaggaa gtggcttca 
aaactgcga tttaacatc acagtcagt gttaatcaa 
attttgtac aagtatgag ccttcgaga tatttttcc 
tgcatcgtt cctagaaca ggaggatgg gagataaac 
ctacaaagt ctccaaaca ttccatcaa gacttgaaa 
ctaatccag tgctgcgtg cttattgag gaaaaccag 
cgcctggaa cgaaaattt tcggacgtt tccttgaaa 
atcaacaac aaatttatc gagaaaaat gcaattgat 
gagactgaa gcgaattat ctggatgcc atcaatcgc 
attgagaat cgactgagc tttttgaag tcaaatcga 
aacagtgat gatttcatg gacaagatc agccagttg 
aatttttca attttggaa gaaccattc caggaaaag 
gaagatttc aagagcgat tattcggaa tcgctcccc 
aacattcca gaagaaatc aacctgact tgttcttcg 
tgtgcgctc gatatgtta ccgccgatt tatttgtgt 
aaaaagggc cataacgtg tgcagttgg tgcaaagcc 
agtccttgc aaaatctgc tctgaggcc gtcaccatt 
gagcggaac cgcgatttg gaaaatatc agtcggacg 
catttgcat caatgtcga tatttttcg gacggttgt 
aacgaaaga ttgctgtac aatgaagtg cgagttcat 
gaagccaaa tgcaacttt tgcaaatac aaatgttcc 
atttgtccg tatctggga cgattcgat catttctac 
aaccatttg aaagtcgtt catagcagt attaaagtc 
gtgcaaacg actcgatgc agttttccc aaaaataca 
aacatgttt cttgtgaat aaatcgatc ggcatattt 
tactgccag tcggaaaca gatgataat tgtttgatt 
tggagagct actttctgc ggaccgaag gaaagacaa 
ttcttttgt gaaattact ttcaaagga agcaaatat 
aaggaggcg atttttttg aaacggcga gagaatgtc 
tacgaaatt aagaaatcg attgatgag ctaaagaaa 
atgaaagcc aaagagaaa tatgcggca cttagtgtt 
acgacctat gagtaa
    mRNA sequence
    • >TC004464 RA
      catgaataa caaagggaa gaagcacat ctccacatg 
caaaccgta gtgatttta cccataaca gatttaaaa 
acaaagaaa gggaatact atttgccaa aaatttgta 
gcaaatctt acagacaca ccgaaaatt tctaattgg 
aatgctgct actttgcac gaggcaatt aaaaaaagg 
cacgaagtt tagtttttc gcttgattt tcttgattt 
gagaattcc gatctatcg ttagagaaa tcggagcgt 
ctacaagtg gaattaaag gaccagatg ttttgaaaa 
tttaaattc aagccagat ttgaaattg ggaacttta 
tggatacta ccatcactc cagttgatt ccagaaaca 
cagtgaggc gaaagggct atttgcaaa attgcaaca 
accatcggc agagaccat actaactgt attttcatt 
cttataaat aaataaaac actgtttcg tacagtttc 
gtatttttt ttttctatt aatgttatg aataatgat 
agtttataa ctaaaaaag tcttcctta aagtcataa 
atatttgtt tgttgatag tttggtaag gtcaattgt 
tatgcaaca aatttgggt taaaatttt cgtggcaaa 
ttgctgata aaaatgtta aattttacg aacgcacat 
ttgtttatt tatctgttg ataaatgtt atctcaaag 
ttgtgataa caacagtca tcgcgaatt tgacgcaac 
aaattcttt ttccatggc tgtgattta ttcgtgtcc 
cgctcataa acagttatt atgctcatg ggagggtta 
tgcaagcga tataaaaca ccatttcga aaaggaaca 
ttgcaatct cttatctta taccaactt tgtcgatat 
tgatctcga acaactgcc acagaataa gttgctgtt 
tctcgatgg taaaatata cttgatgca aaatagttt 
aaacgataa gggacttgt aataaggtt gcgatatct 
tggctccaa ggaagtggc ttcaaaact gcgatttaa 
catcacagt cagtgttaa tcaaatttt gtacaagta 
tgagccttc gagatattt ttcctgcat cgttcctag 
aacaggagg atgggagat aaacctaca aagtctcca 
aacattcca tcaagactt gaaactaat ccagtgctg 
cgtgcttat tgaggaaaa ccagcgcct ggaacgaaa 
attttcgga cgtttcctt gaaaatcaa caacaaatt 
tatcgagaa aaatgcaat tgatgagac tgaagcgaa 
ttatctgga tgccatcaa tcgcattga gaatcgact 
gagcttttt gaagtcaaa tcgaaacag tgatgattt 
catggacaa gatcagcca gttgaattt ttcaatttt 
ggaagaacc attccagga aaaggaaga tttcaagag 
cgattattc ggaatcgct ccccaacat tccagaaga 
aatcaacct gacttgttc ttcgtgtgc gctcgatat 
gttaccgcc gatttattt gtgtaaaaa gggccataa 
cgtgtgcag ttggtgcaa agccagtcc ttgcaaaat 
ctgctctga ggccgtcac cattgagcg gaaccgcga 
tttggaaaa tatcagtcg gacgcattt gcatcaatg 
tcgatattt ttcggacgg ttgtaacga aagattgct 
gtacaatga agtgcgagt tcatgaagc caaatgcaa 
cttttgcaa atacaaatg ttccatttg tccgtatct 
gggacgatt cgatcattt ctacaacca tttgaaagt 
cgttcatag cagtattaa agtcgtgca aacgactcg 
atgcagttt tcccaaaaa tacaaacat gtttcttgt 
gaataaatc gatcggcat attttactg ccagtcgga 
aacagatga taattgttt gatttggag agctacttt 
ctgcggacc gaaggaaag acaattctt ttgtgaaat 
tactttcaa aggaagcaa atataagga ggcgatttt 
tttgaaacg gcgagagaa tgtctacga aattaagaa 
atcgattga tgagctaaa gaaaatgaa agccaaaga 
gaaatatgc ggcacttag tgttacgac ctatgagta 
atcatttat tgtgcaaaa tcggcgaaa taaataaaa 
acttcaaca cttg

    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