Status
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Gene information
General information
TC011404 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_007425.3: 5747235..5753988
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
    		TC011404
    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 *
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05031

    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: 0.0% (includes death as pupa, adult)

    Fertility
    vitellarium not present - Number of animals showing the phenotype: 4

    vitellogenic egg chamber not present - Number of animals showing the phenotype: 4
    previtellogenic egg chamber potentiallypresent - Number of animals showing the phenotype: 4

    Comment: potentially some previtellogenic eggs in posterior region of tropharium
    mature egg not present - Number of animals showing the phenotype: 4
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection


    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    pupal molt not fulfilled (died as L7 or prepupa) - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    Pupal morphology
    eyes size decreased - Number of animals showing the phenotype: 2

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011404 RA
      MAVLQEFDR AISCVASKL DGSAPQPSD AGASIFTMS 
TEDSSEDMD IAQQLKNME NVINLTRAN IDALNAKFA 
DFQHPPPIY LMEYEDLTC KLHELELQE RRLIEQLSN 
GRESPPELL EEPERRAAQ PHALALRPR FLRAHLPNQ 
QRTSVQVRE GLTLRDALA KAMKLRNLI CEMCCVYLG 
DTNTVVNWD TDISTLNCE EITVKILDK FPIPTSISH 
NFVRKTYFS LVFCECCRR LLFQGFYCR TCGYKFHQR 
CAGNVPPLC HQVRMTDAY YRALLARSP DFSAGILHP 
GQAGLGLSR QPRHPGTLG HHDRSSSAP NVCLNNVKG 
PGDDCPKSL SLTRGGIDD GLPHYHSTQ ASPTGSLQP 
RRPRARSAD ESKPLLAPR ESIEDWEIP ADEILVGHR 
VGSGSFGTV YKAHWHGPV AVKTLNVKI PTLAQLQAF 
KNEVAVLRK TRHVNILLF MGCVSKPQL AIVTQWCES 
SSLYKHLHV HETKFALFT LIEIGRQTA QGMDYLHAK 
NIIHRDLKS NNIFLHDDL TVKIGDFGL ATAKIRWSG 
SKQFHQPTG SILWMAPEV IRMQEDNPY SFQSDVYAF 
GIVMFEMLA MQLPYSHIN NKDQILFMV GRGYLKPDM 
SKLRSDTPK ALRRLTEDC IKFNRDERP LFRQIHASL 
EGLLRSHPK INRSASEPN MNRTQIQSD DFIYPCASP 
KTPVAFGPS SFFYSGGTG NI
    CDS sequence
    • >TC011404 RA
      atggcagtt ttgcaagag tttgatagg gcaatatct 
tgcgttgcg tctaagttg gatgggagt gcccctcag 
ccgtctgat gccggtgcg agcatcttc acaatgtcg 
accgaagac agcagcgaa gacatggac atcgcgcag 
caactcaag aacatggag aacgttatt aacctgacc 
cgcgccaac atcgacgcc cttaacgcc aagttcgcc 
gacttccag cacccgccg cccatctac ctgatggag 
tacgaggac ctcacctgc aagctgcac gaactagag 
ctccaggag cgccgcctc atcgagcag ctgagcaac 
ggccgcgag agccccccc gagctgctg gaggagccc 
gagcggcgc gccgcacag ccccacgcc ctcgccctc 
aggcctagg ttcctcagg gcgcatctg cccaaccag 
cagcgcacc agcgtccaa gtacgcgag gggctcacg 
ctgcgagac gccttagcc aaagcaatg aaactacgt 
aaccttatt tgtgaaatg tgctgtgtt tatctcggg 
gatactaac actgtggtg aattgggac acggatatt 
agcaccctc aactgcgag gagatcacc gttaaaata 
ctcgacaag tttcccatt ccaacgagt atttcgcat 
aatttcgtt agaaagact tacttctcg ctggtgttc 
tgtgaatgc tgtcggaga cttttattt caagggttt 
tattgtagg acttgcgga tacaagttc caccaaagg 
tgtgccgga aacgtacct ccattgtgt caccaagtt 
cgtatgacg gacgcctac taccgggcg ctcctcgcc 
cgctctccg gacttcagc gcgggcatc ctgcaccca 
ggtcaggcc ggcctgggg ctctcccgc cagccgcgc 
caccctggc accctcggc caccacgac cgctccagc 
tccgccccc aacgtctgc ctcaacaac gtgaagggc 
cccggcgac gactgcccc aagtccctc agtctgacc 
cggggcggc atcgacgac ggcctcccc cactaccac 
agcacccag gcctcgccc accggctcc ctccagccg 
cgccgaccc cgtgctcgc tccgccgac gagagcaag 
cccctcctc gcccctcgc gagagcatc gaggattgg 
gagatcccc gccgacgag atcctcgtc ggccatcgg 
gtcggctcg ggctccttc ggcacggtc tacaaggcc 
cattggcac ggcccggtc gctgtcaag acgctcaac 
gttaaaata ccaacgttg gcacaactg caagccttc 
aagaacgag gtggcagta ctgcgcaaa acgcgacac 
gtgaacatt ttattgttc atggggtgt gttagtaag 
ccgcagttg gcgatcgtg acgcaatgg tgcgagagt 
tcgagcttg tacaagcat ctccacgtg cacgagacg 
aaattcgcg ctttttact ttgatcgaa atcgggaga 
caaacggca caaggaatg gactacctc catgcgaaa 
aatatcatc catcgagat ctcaaatcg aataatatt 
ttcctacac gatgaccta accgtcaaa atcggcgat 
ttcggctta gccacggcc aagatccgt tggtcgggc 
tccaagcag ttccaccag ccgacgggg agcatcctc 
tggatggcg ccagaagtg atccggatg caggaggac 
aacccgtac agcttccag tcggacgtt tacgcgttc 
gggatcgtt atgttcgag atgttggca atgcaattg 
ccctactcc cacatcaac aacaaggac caaatcctg 
ttcatggtg gggaggggg tacctcaaa ccagacatg 
agtaaacta cgctccgac acacccaaa gctttaaga 
cgactcact gaagactgt atcaagttc aatcgggac 
gagagaccg cttttcagg cagattcat gcctcgttg 
gagggactt ttgaggagt catccgaaa attaacaga 
tcggcgtcc gaaccgaac atgaatcgg acgcagatc 
cagtctgat gattttatt tatccgtgt gctagtccg 
aaaacaccg gtggcgttc ggaccgtcg agttttttt 
tattcggga ggaacgggt aatatctga
    mRNA sequence
    • >TC011404 RA
      gggcgctgc agtgtcgtg aaagtccct agtcagttt 
gtccaacct ccgaaatgt catttgtca ggtaaaatg 
ggcaagtgc aatggcagt tttgcaaga gtttgatag 
ggcaatatc ttgcgttgc gtctaagtt ggatgggag 
tgcccctca gccgtctga tgccggtgc gagcatctt 
cacaatgtc gaccgaaga cagcagcga agacatgga 
catcgcgca gcaactcaa gaacatgga gaacgttat 
taacctgac ccgcgccaa catcgacgc ccttaacgc 
caagttcgc cgacttcca gcacccgcc gcccatcta 
cctgatgga gtacgagga cctcacctg caagctgca 
cgaactaga gctccagga gcgccgcct catcgagca 
gctgagcaa cggccgcga gagcccccc cgagctgct 
ggaggagcc cgagcggcg cgccgcaca gccccacgc 
cctcgccct caggcctag gttcctcag ggcgcatct 
gcccaacca gcagcgcac cagcgtcca agtacgcga 
ggggctcac gctgcgaga cgccttagc caaagcaat 
gaaactacg taaccttat ttgtgaaat gtgctgtgt 
ttatctcgg ggatactaa cactgtggt gaattggga 
cacggatat tagcaccct caactgcga ggagatcac 
cgttaaaat actcgacaa gtttcccat tccaacgag 
tatttcgca taatttcgt tagaaagac ttacttctc 
gctggtgtt ctgtgaatg ctgtcggag acttttatt 
tcaagggtt ttattgtag gacttgcgg atacaagtt 
ccaccaaag gtgtgccgg aaacgtacc tccattgtg 
tcaccaagt tcgtatgac ggacgccta ctaccgggc 
gctcctcgc ccgctctcc ggacttcag cgcgggcat 
cctgcaccc aggtcaggc cggcctggg gctctcccg 
ccagccgcg ccaccctgg caccctcgg ccaccacga 
ccgctccag ctccgcccc caacgtctg cctcaacaa 
cgtgaaggg ccccggcga cgactgccc caagtccct 
cagtctgac ccggggcgg catcgacga cggcctccc 
ccactacca cagcaccca ggcctcgcc caccggctc 
cctccagcc gcgccgacc ccgtgctcg ctccgccga 
cgagagcaa gcccctcct cgcccctcg cgagagcat 
cgaggattg ggagatccc cgccgacga gatcctcgt 
cggccatcg ggtcggctc gggctcctt cggcacggt 
ctacaaggc ccattggca cggcccggt cgctgtcaa 
gacgctcaa cgttaaaat accaacgtt ggcacaact 
gcaagcctt caagaacga ggtggcagt actgcgcaa 
aacgcgaca cgtgaacat tttattgtt catggggtg 
tgttagtaa gccgcagtt ggcgatcgt gacgcaatg 
gtgcgagag ttcgagctt gtacaagca tctccacgt 
gcacgagac gaaattcgc gctttttac tttgatcga 
aatcgggag acaaacggc acaaggaat ggactacct 
ccatgcgaa aaatatcat ccatcgaga tctcaaatc 
gaataatat tttcctaca cgatgacct aaccgtcaa 
aatcggcga tttcggctt agccacggc caagatccg 
ttggtcggg ctccaagca gttccacca gccgacggg 
gagcatcct ctggatggc gccagaagt gatccggat 
gcaggagga caacccgta cagcttcca gtcggacgt 
ttacgcgtt cgggatcgt tatgttcga gatgttggc 
aatgcaatt gccctactc ccacatcaa caacaagga 
ccaaatcct gttcatggt ggggagggg gtacctcaa 
accagacat gagtaaact acgctccga cacacccaa 
agctttaag acgactcac tgaagactg tatcaagtt 
caatcggga cgagagacc gcttttcag gcagattca 
tgcctcgtt ggagggact tttgaggag tcatccgaa 
aattaacag atcggcgtc cgaaccgaa catgaatcg 
gacgcagat ccagtctga tgattttat ttatccgtg 
tgctagtcc gaaaacacc ggtggcgtt cggaccgtc 
gagtttttt ttattcggg aggaacggg taatatctg 
aggggaggg cgccaagag ggacgttta ggacgagtg 
agagtgcgt gatacggct tgagtagag gttatcatt 
aagttattg tcaagtatt taaatttaa atattgttt 
tgttttcgt attaaataa attcttaaa aaaata

    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