Status
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Gene information
General information
TC003322 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: 1235977..1237679
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
    		TC003322
    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_00552

    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: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

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

    previtellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    previtellogenic egg chamber sometimes segmentation/division not present - Number of animals showing the phenotype: 4
    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality late (L7) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    delayed (still prepupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 1 (19 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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003322 RA
      MPLQMQTIV ALNAVEPMQ VDAPPEDND NNEEESYIV 
ENPSLDLEV YANSYSGLA KLYRLIFII DHCPSLRLE 
ALKMAISYV MTTYNVNLY QVLHQKLAE VTTQMSVPD 
VAATSTSQD IPVIDNLWM ETRSKKAAL KLEKLDNDL 
KSYKSNSIK ESIRRGHDD LGEHYLDCG DLSNALKCF 
SRARDYCTS GKHVVNMCL NVIKVSVYL QNWSHVLSY 
VSKAESTPD FTEAQTKDS NQVIVTKLK CAAGLAELA 
TKKYKSAAK HFLQANLDH CDFPELLSP NNVAMYGGL 
CALATFDRH ELQKNVIFS SSFKLFLEL EPQLRDIIF 
KFYESKYAS CLKLLDEIK DNLLLDMYI APHINTLYT 
QIRNRALIQ YFSPYLSAD MHKMAIAFN RTVPALEDE 
LMQLILDGQ IQARIDSHN KILFAKDVD QRSTTFERS 
LLMGKEYQR RTRMLILRA AVLKSKIHV KSPQRDTSG 
QSGEVTVAP GTSSVLSAR N
    CDS sequence
    • >TC003322 RA
      atgccgctc caaatgcag accattgtg gccctgaac 
gcagtggag cccatgcaa gtggacgct ccccccgaa 
gacaacgac aacaatgag gaggagagc tacattgtt 
gagaatccc tcccttgat ctggaagtc tacgccaac 
agctactcg ggcttggcc aagctctac cgcctcatt 
ttcatcata gaccactgt ccctctctg cgtctggaa 
gccctaaaa atggccatt tcgtacgta atgaccacc 
tacaacgtg aacttgtac caagtgctc caccagaag 
ctggccgaa gtgacgaca caaatgagc gtgccagac 
gtggccgcc acttccacc tcccaagac atcccagtt 
atagacaac ctctggatg gaaacccgc tcgaaaaag 
gccgccctt aagctggag aaactcgac aatgacttg 
aagagctac aagtccaac tcgatcaag gagagcatc 
aggcggggt cacgacgac ctaggggag cactatcta 
gactgtggc gatttgtcc aacgctttg aaatgcttt 
tcccgggcg agagactac tgcactagc ggcaaacac 
gtggtcaac atgtgcctc aacgttatc aaagtttcg 
gtttatttg caaaactgg tcgcacgtc ctgagttat 
gtttcaaag gctgagagc actcccgac ttcaccgaa 
gcccagacg aaagactcg aaccaggtc attgtgacc 
aagctgaaa tgcgccgca ggtttggcc gaacttgct 
acaaaaaaa tacaaatct gcagccaaa cacttcctg 
caagccaat ctagaccac tgtgacttt cctgagctg 
ctttcgcca aataatgtc gctatgtat ggcgggttg 
tgcgctttg gccacgttt gatcggcac gagttgcaa 
aaaaacgtg atttttagt agttcgttt aagttgttt 
ctggagttg gaaccgcaa ctgcgcgac attattttc 
aaattctac gagtcaaaa tacgcgtct tgtttgaag 
ttgcttgat gagattaag gacaacttg ctcttggac 
atgtacatc gctccgcat atcaatact ttgtacaca 
caaatacga aaccgcgct ttgatccag tatttcagt 
ccatacttg tccgcggat atgcataag atggccatt 
gcattcaat cgaaccgtg ccagcgctg gaggacgag 
ctgatgcag ctgattctg gatgggcag atccaggcc 
aggatcgat tcgcataat aaaattctg tttgcgaag 
gacgttgac caaagaagt acgacgttt gagaggagt 
ttgttgatg gggaaggag taccagagg aggactagg 
atgttgatt ttgcgagcg gcggttcta aaaagcaag 
atacatgtg aagagcccg caaagggac acgtctggc 
cagagtggg gaagtgaca gtggcgcca ggcactagt 
agcgttttg tcggcgcga aattga
    mRNA sequence
    • >TC003322 RA
      gacttgtgc aaatagtcc gaacgccgg gccgggaaa 
tgtcgatgt gaaagaagg caaaaataa accacagac 
ggagaaata ttaataatg ccgctccaa atgcagacc 
attgtggcc ctgaacgca gtggagccc atgcaagtg 
gacgctccc cccgaagac aacgacaac aatgaggag 
gagagctac attgttgag aatccctcc cttgatctg 
gaagtctac gccaacagc tactcgggc ttggccaag 
ctctaccgc ctcattttc atcatagac cactgtccc 
tctctgcgt ctggaagcc ctaaaaatg gccatttcg 
tacgtaatg accacctac aacgtgaac ttgtaccaa 
gtgctccac cagaagctg gccgaagtg acgacacaa 
atgagcgtg ccagacgtg gccgccact tccacctcc 
caagacatc ccagttata gacaacctc tggatggaa 
acccgctcg aaaaaggcc gcccttaag ctggagaaa 
ctcgacaat gacttgaag agctacaag tccaactcg 
atcaaggag agcatcagg cggggtcac gacgaccta 
ggggagcac tatctagac tgtggcgat ttgtccaac 
gctttgaaa tgcttttcc cgggcgaga gactactgc 
actagcggc aaacacgtg gtcaacatg tgcctcaac 
gttatcaaa gtttcggtt tatttgcaa aactggtcg 
cacgtcctg agttatgtt tcaaaggct gagagcact 
cccgacttc accgaagcc cagacgaaa gactcgaac 
caggtcatt gtgaccaag ctgaaatgc gccgcaggt 
ttggccgaa cttgctaca aaaaaatac aaatctgca 
gccaaacac ttcctgcaa gccaatcta gaccactgt 
gactttcct gagctgctt tcgccaaat aatgtcgct 
atgtatggc gggttgtgc gctttggcc acgtttgat 
cggcacgag ttgcaaaaa aacgtgatt tttagtagt 
tcgtttaag ttgtttctg gagttggaa ccgcaactg 
cgcgacatt attttcaaa ttctacgag tcaaaatac 
gcgtcttgt ttgaagttg cttgatgag attaaggac 
aacttgctc ttggacatg tacatcgct ccgcatatc 
aatactttg tacacacaa atacgaaac cgcgctttg 
atccagtat ttcagtcca tacttgtcc gcggatatg 
cataagatg gccattgca ttcaatcga accgtgcca 
gcgctggag gacgagctg atgcagctg attctggat 
gggcagatc caggccagg atcgattcg cataataaa 
attctgttt gcgaaggac gttgaccaa agaagtacg 
acgtttgag aggagtttg ttgatgggg aaggagtac 
cagaggagg actaggatg ttgattttg cgagcggcg 
gttctaaaa agcaagata catgtgaag agcccgcaa 
agggacacg tctggccag agtggggaa gtgacagtg 
gcgccaggc actagtagc gttttgtcg gcgcgaaat 
tgaactact tgctgatag ttattttct gtgaacttg 
tattaaatt tattttcct ttt

    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