Status
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Gene information
General information
TC012875 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_007424.3: 15272538..15275172
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
    		TC012875
    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
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    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05347

    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: 60.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    Pupal morphology
    beetle stock: bad (increased lethality),
    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: 30.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012875 RA
      MSYKEKLPK LVDVYRSSK PLDRRQLPL VVDENLTLV 
MDVRSSGLV CDNPLVRGK ELEEFTKKY DTLSETELR 
SALEITKSE LMNVLNQNV PCVGCRRSV ERLYYQLFK 
LRHPTLNPL MVEKDGKIT IDEKQAMPQ VLCSIFHDH 
SSRLAKLIE NQPKRSKKS LRCLLHSLD SQRSRPLTP 
IWRDVWGCM QTDCKKDVC IIEAPSLRA TLETYLRKH 
RFCGECRTK VLRAYTLLM EEAEPCKEK GYITQLYAG 
IKRCLRDKH IHLPIQTDY ITKLISRAE PELLGSRRE 
RHAKTLEIA QEEVLTCLG ICMYERLHR IYMRMREEE 
CTCQVFAAV AVDTLSRSF ETAVERKRG FSQLELLYA 
ELAREEQQK QIRKEQKKI KRKRKKGKS LEQDGKENC 
NEEDFEDNC YSQADLSCY SCEELLKCD DDDDDYDCD 
KLWIDGCKC EEEKEEKCG YTNNKKGSS DYGYSSENN 
NGCCETASL ISSISSSPE GSELACDTC CQHDGDTLK 
RFRDGEHPS LQQMLEGCS EDEDDSNCK LTPEEVWEF 
ENNHKHLIE KRQELREAL KKRFIDFCA YGPLPVPRL 
LVQSKYASN
    CDS sequence
    • >TC012875 RA
      atgagttat aaggaaaag ttgccaaag ctggtcgac 
gtttaccgc tcctcgaaa ccgctcgac aggaggcaa 
ttacctctt gttgtcgat gaaaattta acgttggtg 
atggacgtc cgcagttcc ggcctcgtg tgtgataac 
cccctggtc cggggcaag gagctggag gagtttacg 
aaaaaatac gacaccttg agcgaaacg gagctgcgt 
tcggcctta gaaatcacc aaatcggaa ctcatgaac 
gtgctcaac caaaacgtg ccatgtgtg gggtgccgc 
cggagcgtt gaacggctg tactaccaa ctgttcaag 
ctgcgccac ccgacgttg aacccccta atggtcgaa 
aaagacggc aaaattaca atcgacgag aagcaggcc 
atgccgcaa gtcctttgt tcgattttt cacgaccat 
tcttcacgt ttggcgaaa ttgatcgaa aatcagccg 
aaaagaagc aaaaagagt ctccggtgc cttttacat 
tcgttggat tcgcagcgt agtcgccct ttgaccccc 
atttggagg gacgtgtgg ggctgcatg cagactgat 
tgtaagaaa gatgtttgc attattgag gcccccagc 
ttaagggcc actctagag acgtacctg cgcaagcat 
aggttctgc ggcgagtgc aggacgaag gttttgaga 
gcttatacg cttctgatg gaagaggct gaaccttgc 
aaggagaaa ggttacata acccaacta tacgccggt 
attaagcga tgtttgcgc gacaaacac atccacctg 
cccatccag accgactac attacgaaa ctgattagt 
cgtgccgaa ccggaattg ctcggaagt cgtagagaa 
cgccacgct aagacttta gaaatcgcg caagaagaa 
gtcctcact tgtctcggc atctgcatg tatgaacgc 
cttcatcgt atctacatg cgtatgcgc gaggaggaa 
tgtacctgt caggtgttt gcagccgtg gctgttgac 
actttgagt cgaagtttt gaaacggcc gtcgaacga 
aaacgtggt ttttcacaa ctcgagtta ttatacgcg 
gaactagca cgcgaagaa caacagaaa cagatcaga 
aaagagcag aaaaagatt aaacgtaag cgcaaaaag 
ggcaaaagt ttggaacag gacgggaaa gagaattgc 
aatgaggag gatttcgag gataattgc tattcgcaa 
gcggatttg agttgttac agttgtgag gagttgctg 
aaatgtgac gatgatgat gatgattac gattgtgac 
aagctgtgg attgatggg tgcaagtgt gaggaggag 
aaggaggaa aaatgtggc tatacaaat aataaaaaa 
ggatcgagc gattatgga tattcgtcg gaaaataat 
aatggttgt tgcgaaacg gcaagtctt atttcgagt 
atttcaagt tcgccggaa ggatcagag ttggcgtgt 
gatacgtgt tgccaacat gatggcgat acgttgaag 
aggttcaga gatggcgaa catccgagc ttgcagcag 
atgttagag ggttgtagc gaggacgaa gacgacagc 
aattgtaaa ttaacgccg gaagaggtg tgggagttt 
gaaaacaac cacaaacac ttaatcgag aagcgtcaa 
gaattgcgc gaagcttta aaaaaacgt tttatcgat 
ttttgtgca tacggtcct ttgccagtg cctcgttta 
ctggttcag tcgaaatat gcttcaaat tga
    mRNA sequence
    • >TC012875 RA
      tcaaaactt gtagaaaat ggtgtggta gtgcactgg 
attaaagtg ccgttgatt ccctgaata aaacccaaa 
agttcaatc gaaaaatcc cgcaagacg cttacagcc 
cccttggac ggagctatg agttataag gaaaagttg 
ccaaagctg gtcgacgtt taccgctcc tcgaaaccg 
ctcgacagg aggcaatta cctcttgtt gtcgatgaa 
aatttaacg ttggtgatg gacgtccgc agttccggc 
ctcgtgtgt gataacccc ctggtccgg ggcaaggag 
ctggaggag tttacgaaa aaatacgac accttgagc 
gaaacggag ctgcgttcg gccttagaa atcaccaaa 
tcggaactc atgaacgtg ctcaaccaa aacgtgcca 
tgtgtgggg tgccgccgg agcgttgaa cggctgtac 
taccaactg ttcaagctg cgccacccg acgttgaac 
cccctaatg gtcgaaaaa gacggcaaa attacaatc 
gacgagaag caggccatg ccgcaagtc ctttgttcg 
atttttcac gaccattct tcacgtttg gcgaaattg 
atcgaaaat cagccgaaa agaagcaaa aagagtctc 
cggtgcctt ttacattcg ttggattcg cagcgtagt 
cgccctttg acccccatt tggagggac gtgtggggc 
tgcatgcag actgattgt aagaaagat gtttgcatt 
attgaggcc cccagctta agggccact ctagagacg 
tacctgcgc aagcatagg ttctgcggc gagtgcagg 
acgaaggtt ttgagagct tatacgctt ctgatggaa 
gaggctgaa ccttgcaag gagaaaggt tacataacc 
caactatac gccggtatt aagcgatgt ttgcgcgac 
aaacacatc cacctgccc atccagacc gactacatt 
acgaaactg attagtcgt gccgaaccg gaattgctc 
ggaagtcgt agagaacgc cacgctaag actttagaa 
atcgcgcaa gaagaagtc ctcacttgt ctcggcatc 
tgcatgtat gaacgcctt catcgtatc tacatgcgt 
atgcgcgag gaggaatgt acctgtcag gtgtttgca 
gccgtggct gttgacact ttgagtcga agttttgaa 
acggccgtc gaacgaaaa cgtggtttt tcacaactc 
gagttatta tacgcggaa ctagcacgc gaagaacaa 
cagaaacag atcagaaaa gagcagaaa aagattaaa 
cgtaagcgc aaaaagggc aaaagtttg gaacaggac 
gggaaagag aattgcaat gaggaggat ttcgaggat 
aattgctat tcgcaagcg gatttgagt tgttacagt 
tgtgaggag ttgctgaaa tgtgacgat gatgatgat 
gattacgat tgtgacaag ctgtggatt gatgggtgc 
aagtgtgag gaggagaag gaggaaaaa tgtggctat 
acaaataat aaaaaagga tcgagcgat tatggatat 
tcgtcggaa aataataat ggttgttgc gaaacggca 
agtcttatt tcgagtatt tcaagttcg ccggaagga 
tcagagttg gcgtgtgat acgtgttgc caacatgat 
ggcgatacg ttgaagagg ttcagagat ggcgaacat 
ccgagcttg cagcagatg ttagagggt tgtagcgag 
gacgaagac gacagcaat tgtaaatta acgccggaa 
gaggtgtgg gagtttgaa aacaaccac aaacactta 
atcgagaag cgtcaagaa ttgcgcgaa gctttaaaa 
aaacgtttt atcgatttt tgtgcatac ggtcctttg 
ccagtgcct cgtttactg gttcagtcg aaatatgct 
tcaaattga gatttgatt ttttcattt tttattagg 
ggtccattt atttcgtta cagtctttt taactggat 
gtatttttt ttaaaacgc cgcattata caaattttt 
aaagcacat tattttttt tatcataca agtcagtcc 
agtatatgc acattccat ttatgggtt atattgtta 
tatattttg attagggat ggtgtgttg catcacact 
tgtgcagat tcagtgtat

    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