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Gene information
General information
TC005276 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.

NW_015450917.1: 1917..21557
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
    		TC005276
    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
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    Email
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    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.

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06673

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: >5 number 2nd lateral oviduct: - Number of animals showing the phenotype: 1
    ovary without detectable defects - Number of animals showing the phenotype: 3
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 abdomen musculature specific subset ventral partiallyrounded - Penetrance (percentage of animals/eggs on slide): more than 80%

    abdomen musculature random partiallynot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     labium proximal swollen - Penetrance (percentage of animals/eggs on slide): more than 80%
    labium orientation irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    dorsal ridge row not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    thorax tracheal opening number increased - Penetrance (percentage of animals/eggs on slide): more than 80%
    Comment:
    prothorax potentially transformed - Penetrance (percentage of animals/eggs on slide): more than 80%

    prothorax tracheal opening ectopically present - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005276 RA
      MRKAENEMS NKMRKILVK DMNDVLVCT LCNGYLVDA 
TTLTECHHV FCRGCILRH FETCKTACP SCNLVYKKK 
NQVFFKADP QIQSIVYKV VPGLYSKEM QRREDFYRS 
TGVRASSSC SDDSVLERE REIIKDEDS MVSSYTGSK 
TQFFGPEDS ISLSLEYYQ VHLDKTPVE GSKSIKSSD 
KSVSVLNNN NSEAVSDKH KLNGTKNGE CKSGDKRYL 
QCPAAVSMK HLQKFIRMK FALSQNHKV DIIYEGEVL 
HSNFTLMDV AYTFKWKRL KPLRFFYRI FTPLKIQPI 
KIVNSGKQL QIVKNGEPI TPKPEPEVI SEEKERLLA 
NLQLQSKTK VQNDNNVPE KVAQDCVFD YEEQDKEEI 
KRFAEIRDR EWALQKKLD ESREKERDE DYHHFSKKR 
KKSKHSKND CVYKKRKLH AEITNEEEL KLKVKLTPH 
NGHKHKHHK SEMSSKEKL LQMRQVRHK HVTSEDKNV 
QTASTEPPT ADKKPEPEE INGEKKEET KEAKEPKKP 
IPDLAPKTL RSDFPAKTL NKEWGHRVP TVQIERNEQ 
TEQQAKKTF LKSYQAYAE KYQKTIEKT QSANRPAST 
LERKIANLQ QRCTIEAKP PEKPPQYPP GFTVSKIES 
GVPNNKEEK REEKRPSLE ITLINPPEV KPPKRPPPA 
TIPLDRIKK SLIFKTGIS IIPKDNIGA LDLSAKPPS 
KEGDPPNGF APPKDTKNL SNLQMLSKV ATEHPSLNK 
PKPRPQLPN LQTLKIPSP NQRIPPNLK LINKGQFRM 
MNPQIRNLR PNQNQSIRN IPNPSLVVR QQQNRINSM 
NPVPAPSNN VENKEKKEP ESKPEVSV
    CDS sequence
    • >TC005276 RA
      atgcgcaag gctgagaac gaaatgagc aacaaaatg 
cgaaaaatc ctcgtcaag gacatgaac gacgtgctc 
gtctgcacg ctatgtaac gggtatttg gtcgacgca 
accacactt accgaatgt caccatgtt ttctgtcgc 
ggctgcatt ttgcgccac tttgagacc tgcaaaacg 
gcatgtcct tcgtgcaat ctcgtctac aagaagaaa 
aaccaagtt ttcttcaaa gccgatccg caaattcag 
tcgattgtt tataaagtg gtgccaggg ttgtactcg 
aaggagatg caacgcagg gaggatttt tacaggagt 
accggagtt agggccagt agttcatgt agcgatgat 
agtgtcctt gaacgcgaa cgcgaaata ataaaggac 
gaggactca atggtgtcg agttatact gggagtaaa 
acacagttt ttcggcccc gaagactcg atttccctc 
tcgttggag tactaccaa gtccatttg gacaaaact 
ccggtggaa gggagcaaa tccatcaag tcgtcggac 
aagagtgtc agtgtttta aataataat aatagtgag 
gcggttagt gataaacat aaattgaac ggtacgaaa 
aatggtgag tgtaaaagt ggtgataag agatatctg 
cagtgtccg gcggctgtt tcgatgaaa catttacaa 
aagtttatt cggatgaag tttgctcta agccagaat 
cataaggtt gatattatt tatgagggg gaggttcta 
cactcgaat tttactcta atggacgtc gcttacacc 
ttcaaatgg aaaaggtta aaacctcta cgtttcttc 
taccgcatc ttcacccca ttgaaaatc cagccaatc 
aaaatcgtc aattcgggc aaacagctg caaatcgtc 
aaaaatggc gaaccgata acacccaag cccgagcca 
gaggtgata agtgaagaa aaggagcga cttttggcc 
aatcttcaa ttgcaaagc aagaccaaa gtacaaaac 
gacaataac gtacctgaa aaagtggca caagactgc 
gttttcgac tacgaggag caagacaag gaggagatc 
aagcggttc gcggagatt cgggaccgg gagtgggct 
ctccagaaa aagctggat gagagcagg gagaaggaa 
cgggatgag gactaccac catttcagc aagaaacgg 
aagaagagc aaacattcg aagaacgac tgcgtgtac 
aagaagcgg aaacttcat gccgaaatc acaaacgaa 
gaagagttg aagttgaag gtcaagttg acgccacac 
aatggccac aagcacaaa caccacaaa agtgagatg 
agtagcaag gaaaagttg ctacagatg agacaagtg 
agacacaaa cacgtcaca agtgaagat aagaacgtc 
caaacggca agcaccgaa cccccaact gctgacaaa 
aaaccagaa cctgaagaa atcaacgga gagaagaaa 
gaagaaacg aaggaagca aaagaaccg aaaaaaccg 
atacctgac ctcgccccc aagacactc cgtagcgat 
ttccccgcc aaaacccta aacaaagaa tggggacat 
agagtacca accgtacaa atcgaacga aatgaacag 
acggaacaa caagccaaa aaaaccttc ctcaagtcg 
taccaagcc tacgccgaa aagtaccaa aaaacaatc 
gagaagacc caaagtgcc aacagaccc gcgtcaacc 
cttgagcga aaaatcgcc aacttgcaa caaagatgc 
accatcgaa gccaaaccc cccgagaaa cccccccag 
tacccccct ggcttcacc gtgagcaaa atcgagagt 
ggggtcccc aacaacaag gaggaaaaa cgggaggag 
aaacgccca agtctcgaa atcacccta atcaacccc 
cctgaagtc aaacccccc aagcggccc cctcccgcc 
acgatcccc ctcgacagg attaagaaa tccctcatt 
ttcaaaact gggattagc attatcccc aaggacaac 
atcggggcg cttgactta tcggcgaag ccgcccagc 
aaggagggg gaccccccg aatgggttc gcgcccccc 
aaggacacc aagaacttg tccaatctc cagatgctg 
tcaaaagtg gcaacggaa cacccctcc cttaacaaa 
cccaagcca aggccacaa ctccccaac ctccaaacc 
cttaaaatc ccgtcgccg aatcagagg attccccca 
aaccttaaa ctgataaat aaagggcag tttcggatg 
atgaatccg caaatcagg aacttgagg ccgaatcag 
aatcagtcg attcggaat attccgaat ccgagtctt 
gtcgtgcgt cagcaacag aatcggatc aattcgatg 
aatccggtg ccagcgccg agcaataac gtggagaat 
aaggagaag aaagagccg gaaagtaaa ccggaagtt 
tcggtttga
    mRNA sequence
    • >TC005276 RA
      tgttttcca cctgaaaac cagcgaatt ttcgcacgg 
gaaaaacgg tgttcggtt cggaaaaca cccggctat 
catctgtgc aaatttcgt gaaaattcg accaaggga 
aaaccccca aaaacgatg cccaacacc ggaatattt 
taacatgca gtacagtat ctgtgtatg taggcgatg 
cggcgttgc cggatcgac gccagtgcg acgttgcca 
cgttcggga cagattttt aacgccgag tgctccgga 
gcgatccgc tggtgacag ttgaatgcg caaggctga 
gaacgaaat gagcaacaa aatgcgaaa aatcctcgt 
caaggacat gaacgacgt gctcgtctg cacgctatg 
taacgggta tttggtcga cgcaaccac acttaccga 
atgtcacca tgttttctg tcgcggctg cattttgcg 
ccactttga gacctgcaa aacggcatg tccttcgtg 
caatctcgt ctacaagaa gaaaaacca agttttctt 
caaagccga tccgcaaat tcagtcgat tgtttataa 
agtggtgcc agggttgta ctcgaagga gatgcaacg 
cagggagga tttttacag gagtaccgg agttagggc 
cagtagttc atgtagcga tgatagtgt ccttgaacg 
cgaacgcga aataataaa ggacgagga ctcaatggt 
gtcgagtta tactgggag taaaacaca gtttttcgg 
ccccgaaga ctcgatttc cctctcgtt ggagtacta 
ccaagtcca tttggacaa aactccggt ggaagggag 
caaatccat caagtcgtc ggacaagag tgtcagtgt 
tttaaataa taataatag tgaggcggt tagtgataa 
acataaatt gaacggtac gaaaaatgg tgagtgtaa 
aagtggtga taagagata tctgcagtg tccggcggc 
tgtttcgat gaaacattt acaaaagtt tattcggat 
gaagtttgc tctaagcca gaatcataa ggttgatat 
tatttatga gggggaggt tctacactc gaattttac 
tctaatgga cgtcgctta caccttcaa atggaaaag 
gttaaaacc tctacgttt cttctaccg catcttcac 
cccattgaa aatccagcc aatcaaaat cgtcaattc 
gggcaaaca gctgcaaat cgtcaaaaa tggcgaacc 
gataacacc caagcccga gccagaggt gataagtga 
agaaaagga gcgactttt ggccaatct tcaattgca 
aagcaagac caaagtaca aaacgacaa taacgtacc 
tgaaaaagt ggcacaaga ctgcgtttt cgactacga 
ggagcaaga caaggagga gatcaagcg gttcgcgga 
gattcggga ccgggagtg ggctctcca gaaaaagct 
ggatgagag cagggagaa ggaacggga tgaggacta 
ccaccattt cagcaagaa acggaagaa gagcaaaca 
ttcgaagaa cgactgcgt gtacaagaa gcggaaact 
tcatgccga aatcacaaa cgaagaaga gttgaagtt 
gaaggtcaa gttgacgcc acacaatgg ccacaagca 
caaacacca caaaagtga gatgagtag caaggaaaa 
gttgctaca gatgagaca agtgagaca caaacacgt 
cacaagtga agataagaa cgtccaaac ggcaagcac 
cgaaccccc aactgctga caaaaaacc agaacctga 
agaaatcaa cggagagaa gaaagaaga aacgaagga 
agcaaaaga accgaaaaa accgatacc tgacctcgc 
ccccaagac actccgtag cgatttccc cgccaaaac 
cctaaacaa agaatgggg acatagagt accaaccgt 
acaaatcga acgaaatga acagacgga acaacaagc 
caaaaaaac cttcctcaa gtcgtacca agcctacgc 
cgaaaagta ccaaaaaac aatcgagaa gacccaaag 
tgccaacag acccgcgtc aacccttga gcgaaaaat 
cgccaactt gcaacaaag atgcaccat cgaagccaa 
accccccga gaaaccccc ccagtaccc ccctggctt 
caccgtgag caaaatcga gagtggggt ccccaacaa 
caaggagga aaaacggga ggagaaacg cccaagtct 
cgaaatcac cctaatcaa cccccctga agtcaaacc 
ccccaagcg gccccctcc cgccacgat ccccctcga 
caggattaa gaaatccct cattttcaa aactgggat 
tagcattat ccccaagga caacatcgg ggcgcttga 
cttatcggc gaagccgcc cagcaagga gggggaccc 
cccgaatgg gttcgcgcc ccccaagga caccaagaa 
cttgtccaa tctccagat gctgtcaaa agtggcaac 
ggaacaccc ctcccttaa caaacccaa gccaaggcc 
acaactccc caacctcca aacccttaa aatcccgtc 
gccgaatca gaggattcc cccaaacct taaactgat 
aaataaagg gcagtttcg gatgatgaa tccgcaaat 
caggaactt gaggccgaa tcagaatca gtcgattcg 
gaatattcc gaatccgag tcttgtcgt gcgtcagca 
acagaatcg gatcaattc gatgaatcc ggtgccagc 
gccgagcaa taacgtgga gaataagga gaagaaaga 
gccggaaag taaaccgga agtttcggt ttgaaggcc 
ggatgtact gaaggtccc agtgagtta cgttatgtt 
cctaattta agacttttg ttatggttt tgttgtgtt 
gtgattgtt tcatgttgc actttttta attcggtca 
ctttgtttc gatgttatc gatgtatga ggtcgctca 
gactgtact tattcatta ttatataaa tatgtatat 
cgtagctat gtttaagta ggttttagg agtatgtgt 
atgtataga acactctgt atataatta aaaattgat 
taaatga
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY