Status
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Gene information
General information
TC006336 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_007423.3: 7370899..7376218
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
    		TC006336
    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_02898

    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 (died as pupa) - 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: < 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006336 RA
      MIEFLATFG LFYLTVGLL PLLVFSYFV LSLSHKLWI 
FTISILHPD VEFLRTITV RTLLDTHRN QGIISVLLC 
VKGQAQPEA IRRHLQEVV RRRDKSGNL TFPRLRHCL 
VTRCGTYAW ERGKFDLDQ NITVAPLSY KGRAVTEYN 
IQDYVSEIV SKYLPQGIP PWQIVIIPS SEDQHYILL 
KLHHVLLNE GLNIGDLLP LIPPTKQGV FVTKSPLVE 
VLPKLEAIP KLKQRLGEE ISNSWNEFI SNYDPLECT 
ELLKTTPGF FQLQAITLV ALVSTVKEC RKGFRVIRN 
DSFSRCKFI FLTFKRECK KRKVTFTNV LKSMLVTLG 
PRNLLKLFV KCAVMLATW PLRFYLRFC REVMALYNC 
IVVGYCTYN NTIVGTLYT YVPLVYLCL REVFQYVGI 
VVKAPRTII EDILLQKES FQTITLCGR KSVAWSDSV 
KLELLRSIS KSTGVSEIE ILLAAISSC ISKYFIQTK 
HLIPDSLPI SLRNINSNY IFGTGPNLR PEDSVSGIL 
CLNLPILDP EKEISTLEN LLEVKTNFR TSLDKQGLS 
HLLSLCQTK FGFLTKILP LSLLSVYLR YLSRKYAVS 
VTELTSRYP NVSQKTLWG QEVTSVIYW RPPQANSSV 
SLCLNEYAD HVRLGVMCD SQLAPHHPL LARSFSEHV 
HELARAAGV MPTQ
    CDS sequence
    • >TC006336 RA
      atgatcgag ttcttggcc actttcgga ctgttttac 
ttaacggtg gggctgctg cccttgctt gtgtttagc 
tattttgtt ttaagtctc agccacaaa ctttggatt 
ttcacaatt tcgattctt caccccgat gttgagttt 
ttgcgcact ataacagtg cgtaccctc cttgacacg 
caccgaaat caggggata atttcagta ttgctgtgt 
gtcaaaggc caggcgcag cctgaggcc attcggagg 
catctccag gaggtggtg cgaaggcgc gacaaatcg 
ggaaattta acgtttccg cggctacgc cactgtctg 
gtcaccagg tgcggaacg tacgcttgg gagcggggc 
aaattcgat ttggaccag aacattaca gtggcccct 
ttgagttac aaaggacgg gcagttact gagtacaat 
atccaggat tatgtgagc gaaattgta tcaaagtat 
ttgccacag gggattccc ccctggcaa atcgttata 
atcccctcg tccgaggac caacattac attctgttg 
aaattgcat catgttttg ttgaacgag gggctgaat 
attggcgat ttgttaccg ctgattccc cccaccaaa 
caaggggtt tttgtgacc aaaagcccc ctagttgag 
gtgttgccc aaactggag gcaatcccc aaactgaag 
caacgtctc ggggaggaa atctcaaac tcgtggaac 
gaatttatt tcgaattat gacccgctc gagtgtacc 
gagttgctt aaaacaaca ccaggtttt tttcaattg 
caggcaatt acgttggta gcactggtc tcgacagtt 
aaggagtgt cgtaaaggt tttcgagtt atccgaaat 
gattccttc tctcggtgt aaatttata tttttgacg 
ttcaaacgc gaatgcaag aaacgtaaa gtgacattt 
acaaatgtc ctaaaatcg atgcttgtg actctagga 
ccgagaaat ctgctgaaa ttgtttgta aaatgtgct 
gtcatgttg gcaacatgg ccgctgcgg ttttatctc 
cgtttctgt cgcgaagtc atggctctg tataactgt 
attgttgtg ggttattgt acttacaac aataccatt 
gttggtact ttgtatact tatgtacca ttggtctac 
ctttgcttg agggaggtg ttccaatac gttggtatt 
gtggttaag gcgccgcgt accataatt gaggatatc 
ctgctccag aaggaatcc ttccaaact ataactctt 
tgtgggcga aaatccgtc gcatggtcc gactctgtt 
aagctcgaa cttttgaga tccatctca aaatctaca 
ggagtctcc gaaattgag atactccta gctgccatc 
tcctcctgt atctcaaaa tatttcatc caaaccaag 
cacttgatc cccgattct ctcccaatc tccctcagg 
aacatcaat tcgaactac attttcggg accggaccg 
aacttaagg cctgaggat tcggtcagc ggcatttta 
tgcctcaat ttaccaatc ctcgacccc gagaaagaa 
atctcgact ttggagaac ctcctcgaa gtaaaaacc 
aacttccgg acgagttta gacaaacaa ggcctatca 
catttgctg agcttgtgc caaacaaaa ttcggattt 
ttgacaaaa atcctaccc ttatccctc ctctcagtc 
tatttgcgt tacttatcc cgaaaatac gccgtttct 
gtgaccgaa ctaaccagc cgctacccc aacgtgagt 
cagaaaacc ctctggggg caagaagtc accagtgtg 
atctactgg cgcccccca caggccaac tccagcgtg 
tcgctctgt cttaacgaa tacgccgat catgtccga 
ttgggcgta atgtgtgat tcacagctc gccccccac 
cacccgcta ctggcacga agcttctcc gaacacgtg 
cacgaactc gcacgagcg gccggcgtc atgccaaca 
caataa
    mRNA sequence
    • >TC006336 RA
      cgagtatca attgatttg ttggtaatt gatgtgtac 
atttgtgcg aagtttgta aaaaatgat cgagttctt 
ggccacttt cggactgtt ttacttaac ggtggggct 
gctgccctt gcttgtgtt tagctattt tgttttaag 
tctcagcca caaactttg gattttcac aatttcgat 
tcttcaccc cgatgttga gtttttgcg cactataac 
agtgcgtac cctccttga cacgcaccg aaatcaggg 
gataatttc agtattgct gtgtgtcaa aggccaggc 
gcagcctga ggccattcg gaggcatct ccaggaggt 
ggtgcgaag gcgcgacaa atcgggaaa tttaacgtt 
tccgcggct acgccactg tctggtcac caggtgcgg 
aacgtacgc ttgggagcg gggcaaatt cgatttgga 
ccagaacat tacagtggc ccctttgag ttacaaagg 
acgggcagt tactgagta caatatcca ggattatgt 
gagcgaaat tgtatcaaa gtatttgcc acaggggat 
tcccccctg gcaaatcgt tataatccc ctcgtccga 
ggaccaaca ttacattct gttgaaatt gcatcatgt 
tttgttgaa cgaggggct gaatattgg cgatttgtt 
accgctgat tccccccac caaacaagg ggtttttgt 
gaccaaaag ccccctagt tgaggtgtt gcccaaact 
ggaggcaat ccccaaact gaagcaacg tctcgggga 
ggaaatctc aaactcgtg gaacgaatt tatttcgaa 
ttatgaccc gctcgagtg taccgagtt gcttaaaac 
aacaccagg tttttttca attgcaggc aattacgtt 
ggtagcact ggtctcgac agttaagga gtgtcgtaa 
aggttttcg agttatccg aaatgattc cttctctcg 
gtgtaaatt tatattttt gacgttcaa acgcgaatg 
caagaaacg taaagtgac atttacaaa tgtcctaaa 
atcgatgct tgtgactct aggaccgag aaatctgct 
gaaattgtt tgtaaaatg tgctgtcat gttggcaac 
atggccgct gcggtttta tctccgttt ctgtcgcga 
agtcatggc tctgtataa ctgtattgt tgtgggtta 
ttgtactta caacaatac cattgttgg tactttgta 
tacttatgt accattggt ctacctttg cttgaggga 
ggtgttcca atacgttgg tattgtggt taaggcgcc 
gcgtaccat aattgagga tatcctgct ccagaagga 
atccttcca aactataac tctttgtgg gcgaaaatc 
cgtcgcatg gtccgactc tgttaagct cgaactttt 
gagatccat ctcaaaatc tacaggagt ctccgaaat 
tgagatact cctagctgc catctcctc ctgtatctc 
aaaatattt catccaaac caagcactt gatccccga 
ttctctccc aatctccct caggaacat caattcgaa 
ctacatttt cgggaccgg accgaactt aaggcctga 
ggattcggt cagcggcat tttatgcct caatttacc 
aatcctcga ccccgagaa agaaatctc gactttgga 
gaacctcct cgaagtaaa aaccaactt ccggacgag 
tttagacaa acaaggcct atcacattt gctgagctt 
gtgccaaac aaaattcgg atttttgac aaaaatcct 
acccttatc cctcctctc agtctattt gcgttactt 
atcccgaaa atacgccgt ttctgtgac cgaactaac 
cagccgcta ccccaacgt gagtcagaa aaccctctg 
ggggcaaga agtcaccag tgtgatcta ctggcgccc 
cccacaggc caactccag cgtgtcgct ctgtcttaa 
cgaatacgc cgatcatgt ccgattggg cgtaatgtg 
tgattcaca gctcgcccc ccaccaccc gctactggc 
acgaagctt ctccgaaca cgtgcacga actcgcacg 
agcggccgg cgtcatgcc aacacaata aaaaatcaa 
caaaaatcg tgttttatt caagtgtga ctccccatt 
cctcacagg gttgccagg tgtagggat ttttgggtg 
tttttgtgt tcaaagtca caaattaga gaacatttt 
aataattca catattttt aacaaaaca attaatctt 
tctagcgat ggacagttg agcaaactt atcacagaa 
agcgaatta agaagatta cacattact gtaatattt 
cggaaagga gttaccgaa atttaaata taagtaaat 
cccagag

    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