Status
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Gene information
General information
TC013367 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_007420.3: 10425829..10427995
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
    		TC013367
    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_05422

    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: 50.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (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: 25.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 50.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    Pupal morphology
    wings slightlyshortened - Number of animals showing the phenotype: 3

    wings not closed - Number of animals showing the phenotype: 3

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013367 RA
      MYTLPHFCR VCLKYDKNL IDLEHIENE PNETLMSKL 
QYCVSGVEW NLFKPLLCH PCIKRLNIT YNFKKQCLQ 
SASVLKSYV SLVTKSNGE NEQPEGVTV VDPSQSNAY 
MMLPNQKYI KIVVGPQTQ NTFQNVFLN VVPTTTISP 
VPIDNKDTN QNVFLNINN TFQRYVPTI ENQVANLNV 
SQLFTESKS EELSVEIDP TDFGLGDEG NSETEEDPE 
NGINDWEDV ISAMKIASR SNGATSNGK HLDPAKTTF 
GTYVPILPK QTDEKMDFS NSGEHFLSP QLYSPLDFN 
CETCQKPFT SRLGLRFHI KNFHMGKYP FKCDYCRNE 
YMCRVEYEA CMKYHKSES DSLTLNDFK DTSLEPDKG 
ATTESEAKP DLTDLVCDI CHRQFNSPS GLLRHKVRK 
HNQKSKKKY FIKGMKNAK CDICNREFS TQSYMQLHR 
KLHLRDDVG YKYKVFGRT RYLQEKKAE ESEQKSDNQ 
DTSNKEGEA EVKKEEESN SDEEN
    CDS sequence
    • >TC013367 RA
      atgtatact ttaccgcat ttttgccgt gtttgcctc 
aaatacgat aagaatctc atcgattta gaacacata 
gaaaacgag ccgaatgaa actttaatg agcaaactt 
cagtactgt gtatctgga gtggagtgg aacctcttc 
aaaccttta ttatgtcat ccttgtata aagcgcttg 
aacatcacg tacaatttc aaaaaacaa tgcctccag 
tcagcttca gtgttgaaa agttacgtg agtctggtt 
acaaaaagc aacggagaa aacgagcaa cctgagggg 
gtcacagtc gtcgaccct tcccagtca aacgcttac 
atgatgctc cccaaccag aaatacatc aaaatcgtg 
gtaggaccc cagacacaa aacacgttc cagaatgtt 
ttcctcaat gttgtgcca acaacaacc atcagcccg 
gtccccatc gataacaag gacacaaac caaaacgtt 
ttccttaat atcaacaac acgtttcaa agatacgtc 
cccacaata gaaaaccaa gtggcgaat ctcaacgtc 
agccagttg ttcacggag agcaaaagc gaagagctt 
agcgttgaa atcgaccca actgacttt ggtctcggc 
gacgagggc aactcagag actgaagaa gatcccgaa 
aacgggatt aacgactgg gaagacgtc atttccgcc 
atgaagatt gcctctcgc tccaacggg gccacctct 
aacggcaag cacctcgac cctgccaag accaccttc 
ggcacttac gttcctatt ctcccaaag cagaccgac 
gagaaaatg gactttagc aattccgga gagcatttt 
ctgtcccca cagctctac tcccccctc gacttcaac 
tgcgagact tgtcagaaa ccgtttacc tcccggctg 
ggcctcaga ttccacatc aaaaatttc cacatgggg 
aaatacccc ttcaagtgt gactattgc aggaacgag 
tatatgtgc cgtgtggaa tatgaggcc tgcatgaaa 
taccacaaa tccgaatcg gactcgctc actttgaac 
gacttcaaa gacacctcg ctggagcca gacaagggg 
gccacgact gaatccgaa gccaaacca gacctgact 
gacctagtt tgcgacatt tgccataga caattcaac 
agcccctcg ggcctgctg agacacaaa gtccgcaaa 
cacaaccag aaaagcaag aagaagtat ttcatcaaa 
gggatgaaa aatgccaaa tgtgatatt tgcaatcgg 
gagttttcg acgcagagt tacatgcag ttgcacaga 
aaattgcac ctgagggat gacgtcggc tataaatat 
aaagttttc ggaaggacg agataccta caagagaag 
aaagcggag gaaagcgag caaaaatcg gacaatcaa 
gacactagc aataaagag ggggaagct gaagtgaag 
aaagaagaa gagtcgaat tcggatgag gaaaattga
    mRNA sequence
    • >TC013367 RA
      tggcgccga agttgacga agctttgac agcccgttt 
gaactttat tgagctttt tattgatat ttatgttta 
gttttacat gacgatgta tactttacc gcatttttg 
ccgtgtttg cctcaaata cgataagaa tctcatcga 
tttagaaca catagaaaa cgagccgaa tgaaacttt 
aatgagcaa acttcagta ctgtgtatc tggagtgga 
gtggaacct cttcaaacc tttattatg tcatccttg 
tataaagcg cttgaacat cacgtacaa tttcaaaaa 
acaatgcct ccagtcagc ttcagtgtt gaaaagtta 
cgtgagtct ggttacaaa aagcaacgg agaaaacga 
gcaacctga gggggtcac agtcgtcga cccttccca 
gtcaaacgc ttacatgat gctccccaa ccagaaata 
catcaaaat cgtggtagg accccagac acaaaacac 
gttccagaa tgttttcct caatgttgt gccaacaac 
aaccatcag cccggtccc catcgataa caaggacac 
aaaccaaaa cgttttcct taatatcaa caacacgtt 
tcaaagata cgtccccac aatagaaaa ccaagtggc 
gaatctcaa cgtcagcca gttgttcac ggagagcaa 
aagcgaaga gcttagcgt tgaaatcga cccaactga 
ctttggtct cggcgacga gggcaactc agagactga 
agaagatcc cgaaaacgg gattaacga ctgggaaga 
cgtcatttc cgccatgaa gattgcctc tcgctccaa 
cggggccac ctctaacgg caagcacct cgaccctgc 
caagaccac cttcggcac ttacgttcc tattctccc 
aaagcagac cgacgagaa aatggactt tagcaattc 
cggagagca ttttctgtc cccacagct ctactcccc 
cctcgactt caactgcga gacttgtca gaaaccgtt 
tacctcccg gctgggcct cagattcca catcaaaaa 
tttccacat ggggaaata ccccttcaa gtgtgacta 
ttgcaggaa cgagtatat gtgccgtgt ggaatatga 
ggcctgcat gaaatacca caaatccga atcggactc 
gctcacttt gaacgactt caaagacac ctcgctgga 
gccagacaa gggggccac gactgaatc cgaagccaa 
accagacct gactgacct agtttgcga catttgcca 
tagacaatt caacagccc ctcgggcct gctgagaca 
caaagtccg caaacacaa ccagaaaag caagaagaa 
gtatttcat caaagggat gaaaaatgc caaatgtga 
tatttgcaa tcgggagtt ttcgacgca gagttacat 
gcagttgca cagaaaatt gcacctgag ggatgacgt 
cggctataa atataaagt tttcggaag gacgagata 
cctacaaga gaagaaagc ggaggaaag cgagcaaaa 
atcggacaa tcaagacac tagcaataa agaggggga 
agctgaagt gaagaaaga agaagagtc gaattcgga 
tgaggaaaa ttgagcctt attttatat caacttttg 
ataaggcac tcgaatttt attttttac cgagagtat 
tttaaggtt cctcttagc ctcaaacac caatcagaa 
tcaaaatag tacttgcaa tacttgtgt tctcaagca 
caaaccttg gtgtttatt tatttcaac atcttgatt 
tttatattg atttgtaca tacacatgt attcccttt 
tttagttat aggtaggtg cgttttatt ttactgttt 
tctgaactg attcttacg taaaaacca aaaacgact 
attgtatgc aaactttat gataagctt ctaggatta 
ttttttata tatatttgt taagcttca aaactcatt 
gtcacacat aaaatactt acgacccac tgaggcatg 
tttttggcg agtcgcaag cgcgtagat gggttggat 
atggccatg ggcctccat ttgttatcg tttttattc 
tgaaaagta gaataagtt gtcattagt tttatttat 
ttcgtatca tttgtattt tatattatg ataatcaca 
ataaatatt ttttgacaa a

    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