Status
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Gene information
General information
TC009163 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_007422.5: 3591136..3593616
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
    		TC009163
    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
    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_01484

    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: 70.0% (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: 4 (3 dpi)
    Days post injection

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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC009163 RA
      MIHEILIDL LHNSDDSLG KLDELQEFL HPGEKQLLH 
HIMEISSNH NWIVSFCKK IQNCSVDQH GLYIKAFVN 
GVLDVLGDY KSEIVRLED LFLQNPELQ LIFISSCLE 
KYQVLFNVI MSIIQVVEK DRLHGCLLM GRLHKYIYC 
GVEPITQAA KKITHCFNS IFYRHLCNW IIYGDLVDL 
YKEFFISDG ECWDEDFLY PEQNEESTL TRVKHRIKR 
PPPVRKFTI VWSMVPMFI TEDTAESIL FMGRIVWIV 
KNHQKTNTD NYQNLHKPD VWDGKDIEY YKKIQALET 
QIFDQMEFQ RVIEECRIK LTKYLWSVM VDEGDLKEH 
LQLIRDYYA LGRGELFHQ FIEAAENQT TSYNLNVIF 
LETARKIYG ENDKTYLRF ELAKLEKTS VNPWSKLQL 
NFEISWPLH IIFNPKSME LYNQLFCYL LRLSRTQIH 
LHKLWQAHM SGKQNIDRR VWTLRQHLI FLVNNLQYY 
LQVDVIEAQ FSLLLKAIE NASEFEEII KVHHEFISN 
LLAKTFILT PDKSHTYQN KHRLHQTPA VQFNVPSEV 
YNVIIQLLE LCDNFCVIA STWQPQLTE PEVTEFEQF 
QKRTDTIVD SLLFILYKL HERADGQHL VQLLHQLDF 
NRFFTRNKP EFNLTQRT
    CDS sequence
    • >TC009163 RA
      atgattcac gagatactg attgacttg ttgcacaat 
tcggacgat tcgttgggc aaacttgac gaactccag 
gagttcctg cacccgggg gagaagcaa ctcctccac 
cacatcatg gaaatatcc tcaaaccac aactggatc 
gtctcattt tgcaaaaaa atccagaac tgtagtgtt 
gaccaacac ggtctctac atcaaggct tttgtgaac 
ggtgtgctt gatgttttg ggggattac aagagcgaa 
attgtcaga ctggaagat ctattcttg caaaacccc 
gagcttcag ttaattttc atttcaagt tgcttggaa 
aagtaccaa gtcttgttc aatgtgatt atgtcgatc 
attcaagtc gtggagaag gacaggctc catgggtgc 
ctcctgatg gggcggctc cacaaatac atctactgt 
ggcgtggaa cctataacc caagctgcg aaaaagata 
actcactgc ttcaacagc attttttac cgccacttg 
tgcaactgg atcatttac ggcgacttg gtcgacctt 
tataaagag tttttcatc agcgatggc gaatgctgg 
gacgaggat ttcctctac cctgagcaa aacgaagaa 
agcacactg acacgagtt aaacaccga atcaagcgc 
ccaccacct gtccgcaaa ttcacaata gtctggtct 
atggttccg atgtttatc actgaagat acggccgaa 
agcatactt ttcatgggc cgaatcgta tggatcgtc 
aaaaaccac cagaaaacc aacacagac aattaccaa 
aacctacac aagcctgac gtttgggac ggcaaagat 
atagagtat tacaagaaa attcaagcg ctcgagacg 
caaattttc gaccagatg gagttccag agggttata 
gaggagtgc agaatcaaa ttaaccaaa tacttgtgg 
tccgttatg gtggacgag ggcgaccta aaggaacac 
ttgcaactt atacgagat tactatgcg ctggggcga 
ggcgaactt ttccatcaa ttcatcgaa gcggcggaa 
aatcaaacc acttcgtac aacctcaac gtgattttc 
ctggaaact gcgcggaaa atctacggc gagaacgac 
aagacgtac ctcagattc gaattagct aaactggaa 
aagacaagc gtgaacccg tggtcgaaa ttacaactc 
aatttcgaa attagttgg ccccttcat atcatcttc 
aacccaaaa tcgatggaa ctgtacaat caattattc 
tgctacttg ttaaggctg agcagaact cagatccac 
ttacacaag ttgtggcaa gcgcacatg tccgggaaa 
caaaacatt gaccggcga gtgtggact ttacgccag 
catttaatt ttcctagtc aataatcta caatattac 
ctccaagtg gacgtgatc gaggcgcaa ttttcgcta 
cttttgaaa gcgatcgaa aacgccagc gaattcgag 
gagatcatc aaagtccat cacgagttc atcagcaac 
ttactcgcg aaaactttc atcctgacc cctgataaa 
agccacact tatcaaaac aaacaccgg ttacaccaa 
actcccgcc gttcagttt aacgtcccg agtgaagtt 
tacaacgtg ataatccag ctgctggag ctgtgtgac 
aatttctgc gtcattgcg tcgacatgg caaccgcag 
ttaaccgaa ccggaagta accgagttt gaacagttc 
cagaaacgc accgatacc atcgtcgat tcgcttttg 
tttattctg tacaagtta catgaacga gccgatggc 
caacacttg gtccagttg ttgcaccag ctcgacttt 
aatcgcttt ttcactcga aacaaaccc gagtttaac 
ctaacgcaa agaacgtaa
    mRNA sequence
    • >TC009163 RA
      tggcagcaa tttgctaat tcaaaaatt gatgttttg 
aggttaaat aattttatt ggtggtaaa aaaaggcca 
taatgattc acgagatac tgattgact tgttgcaca 
attcggacg attcgttgg gcaaacttg acgaactcc 
aggagttcc tgcacccgg gggagaagc aactcctcc 
accacatca tggaaatat cctcaaacc acaactgga 
tcgtctcat tttgcaaaa aaatccaga actgtagtg 
ttgaccaac acggtctct acatcaagg cttttgtga 
acggtgtgc ttgatgttt tgggggatt acaagagcg 
aaattgtca gactggaag atctattct tgcaaaacc 
ccgagcttc agttaattt tcatttcaa gttgcttgg 
aaaagtacc aagtcttgt tcaatgtga ttatgtcga 
tcattcaag tcgtggaga aggacaggc tccatgggt 
gcctcctga tggggcggc tccacaaat acatctact 
gtggcgtgg aacctataa cccaagctg cgaaaaaga 
taactcact gcttcaaca gcatttttt accgccact 
tgtgcaact ggatcattt acggcgact tggtcgacc 
tttataaag agtttttca tcagcgatg gcgaatgct 
gggacgagg atttcctct accctgagc aaaacgaag 
aaagcacac tgacacgag ttaaacacc gaatcaagc 
gcccaccac ctgtccgca aattcacaa tagtctggt 
ctatggttc cgatgttta tcactgaag atacggccg 
aaagcatac ttttcatgg gccgaatcg tatggatcg 
tcaaaaacc accagaaaa ccaacacag acaattacc 
aaaacctac acaagcctg acgtttggg acggcaaag 
atatagagt attacaaga aaattcaag cgctcgaga 
cgcaaattt tcgaccaga tggagttcc agagggtta 
tagaggagt gcagaatca aattaacca aatacttgt 
ggtccgtta tggtggacg agggcgacc taaaggaac 
acttgcaac ttatacgag attactatg cgctggggc 
gaggcgaac ttttccatc aattcatcg aagcggcgg 
aaaatcaaa ccacttcgt acaacctca acgtgattt 
tcctggaaa ctgcgcgga aaatctacg gcgagaacg 
acaagacgt acctcagat tcgaattag ctaaactgg 
aaaagacaa gcgtgaacc cgtggtcga aattacaac 
tcaatttcg aaattagtt ggccccttc atatcatct 
tcaacccaa aatcgatgg aactgtaca atcaattat 
tctgctact tgttaaggc tgagcagaa ctcagatcc 
acttacaca agttgtggc aagcgcaca tgtccggga 
aacaaaaca ttgaccggc gagtgtgga ctttacgcc 
agcatttaa ttttcctag tcaataatc tacaatatt 
acctccaag tggacgtga tcgaggcgc aattttcgc 
tacttttga aagcgatcg aaaacgcca gcgaattcg 
aggagatca tcaaagtcc atcacgagt tcatcagca 
acttactcg cgaaaactt tcatcctga cccctgata 
aaagccaca cttatcaaa acaaacacc ggttacacc 
aaactcccg ccgttcagt ttaacgtcc cgagtgaag 
tttacaacg tgataatcc agctgctgg agctgtgtg 
acaatttct gcgtcattg cgtcgacat ggcaaccgc 
agttaaccg aaccggaag taaccgagt ttgaacagt 
tccagaaac gcaccgata ccatcgtcg attcgcttt 
tgtttattc tgtacaagt tacatgaac gagccgatg 
gccaacact tggtccagt tgttgcacc agctcgact 
ttaatcgct ttttcactc gaaacaaac ccgagttta 
acctaacgc aaagaacgt aatttattt tttcttcat 
cactttcat aaataacac catatctgg aataaatta 
attaggagg aa

    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