Status
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Gene information
General information
TC014954 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_007421.3: 7391596..7404962
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
    		TC014954
    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_02364

    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)

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

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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 - 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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

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

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC014954 RA
      MKGREKLCA KLSSAFLRK WWFVVAASV GIILFGVIV 
IIFFSSWVN LVINHEVTL RNGSQSFGW WAKPPVVPM 
IKVYIYNVT NADEFLNNG SKPVVDELG PYVYVEKWE 
KKNIKFHDN GTVSFNQEK IYTFDESLS AGLEDDVVV 
VPNIPMLSA TSQSKHAAR FLRLAMASI MDILKIKPF 
VEVSVGQLL WGYEDPLLK LAKDVVPKE QKLPYEEFG 
LMYNKNGTS KDTVTLFTG AADITKYGL IDKFNGQSH 
LTHYTSDKC NSLMGSDGS IFPPHLTKN STIYVYDKD 
LCRILPLVY EKTVKGSDD IPAFRFTPP LNVFGDVDE 
NPENLCFCP HGPPCAPSG FFNVSLCQY DSPILLSFP 
HFYLANDSY RTALDGITP PEPEKHKFY IDVQPVMGT 
AMSAKARVQ INLAVSQVV DIKQVATFP DIIFPIMWF 
EEGLDGLPK EMTGLMGLA TTVPPIARA ALAGVLFVM 
GAVLLLIAV WRLVRGANR LSSLHLAPG HVGPPTNKN 
KDVPMGNVP RN
    CDS sequence
    • >TC014954 RA
      atgaaagga agagagaaa ctttgtgca aaactcagc 
agcgctttt ctgcgaaag tggtggttc gtagtggcg 
gcatctgtt gggattata ctgtttggg gtcattgtt 
attattttc ttctcgagt tgggtgaat ttagtcata 
aatcacgaa gtcacgttg cggaatggt tctcaatct 
tttggatgg tgggcaaag ccacccgtt gtcccaatg 
atcaaagtc tacatttac aacgtcacc aacgctgat 
gagttcctc aacaatggg tcgaaacct gtcgtggac 
gagttggga ccttacgtt tacgtcgag aaatgggag 
aagaaaaac atcaaattc cacgataac ggcactgtt 
tccttcaac caggaaaaa atctacacg ttcgacgag 
tctttatcc gctggcctt gaagatgac gtcgtcgtc 
gtacccaac atacccatg ctgagtgct acatctcaa 
tcgaagcat gccgcgaga ttccttcga ctggcaatg 
gccagtatc atggacatc ttgaagatc aaacctttc 
gtcgaggtg tcagtgggg caactgttg tggggctac 
gaggacccc cttctcaaa ctggccaaa gacgtggtc 
cccaaagag caaaaactg ccctacgag gagttcggt 
cttatgtac aataaaaat gggacgtcc aaagataca 
gtgaccctg tttacgggc gcggccgac atcacaaaa 
tacggactg attgataaa tttaatgga cagtcccat 
ctgacccat tacacgtcc gataagtgt aacagttta 
atgggttcc gatgggtcg attttcccg ccacatttg 
accaaaaac agcaccatt tacgtgtac gataaggac 
ttgtgccgg attttgcct ctggtatat gagaaaacg 
gtcaaaggc agcgacgac atccccgcc ttccgcttc 
accccgccc ctcaacgtc ttcggggac gtggacgaa 
aaccccgaa aatctgtgt ttctgtcca catggaccg 
ccctgcgcc ccctccggc tttttcaac gtgtcgctt 
tgccaatac gattcgccc attttactc tccttcccc 
catttctac ctagccaat gacagctat cgcaccgcc 
ctcgacggc atcaccccg cccgagccg gaaaaacac 
aagttttac atcgacgtg caaccggtc atgggtact 
gcgatgagc gccaaagct cgcgtccaa atcaactta 
gccgtgtcg caagtggtt gatatcaaa caagtggcc 
actttcccc gacattatt ttccccatt atgtggttt 
gaggagggg cttgacggt ttaccgaag gaaatgacc 
ggtttgatg ggcttggct acgacggtc ccgcccatt 
gcgagggcg gcgcttgct ggcgttttg tttgttatg 
ggggcggtg cttctccta atcgccgtc tggaggtta 
gtccgaggg gccaatcgg ctcagctcg ttgcatcta 
gcaccaggt cacgtggga ccgcccacc aataaaaac 
aaagacgtt cccatggga aacgtacct aggaattaa
    mRNA sequence
    • >TC014954 RA
      ttcagcttt cactccatc atgtcgaaa ccctatccg 
aaattccac aaggtcaca acttgtgaa aaatccacg 
ttgtttgag gagggggtc cccccttgc gaaaacaac 
caagggggg atctagacg gcatacctg aagacttga 
tcaggtgta acgtgccgt tagcctctc agttggccg 
tggttactc gatacgcgc gttgcgctt ttatttcac 
tacacggca tcgcctccc gtttttttt ttcgtgtgt 
ttccaccac tgacaagtg acgaccgaa gtggatgac 
gaaaacggg ccaacccgg attaaacaa aacatgatg 
gtgaagtta taagtggca gtgttaccc ttaagtgta 
gtgacatca catcaccta cttgatagt ctagacttt 
taaaaaaat taaaaacaa aatgaaagg aagagagaa 
actttgtgc aaaactcag cagcgcttt tctgcgaaa 
gtggtggtt cgtagtggc ggcatctgt tgggattat 
actgtttgg ggtcattgt tattatttt cttctcgag 
ttgggtgaa tttagtcat aaatcacga agtcacgtt 
gcggaatgg ttctcaatc ttttggatg gtgggcaaa 
gccacccgt tgtcccaat gatcaaagt ctacattta 
caacgtcac caacgctga tgagttcct caacaatgg 
gtcgaaacc tgtcgtgga cgagttggg accttacgt 
ttacgtcga gaaatggga gaagaaaaa catcaaatt 
ccacgataa cggcactgt ttccttcaa ccaggaaaa 
aatctacac gttcgacga gtctttatc cgctggcct 
tgaagatga cgtcgtcgt cgtacccaa catacccat 
gctgagtgc tacatctca atcgaagca tgccgcgag 
attccttcg actggcaat ggccagtat catggacat 
cttgaagat caaaccttt cgtcgaggt gtcagtggg 
gcaactgtt gtggggcta cgaggaccc ccttctcaa 
actggccaa agacgtggt ccccaaaga gcaaaaact 
gccctacga ggagttcgg tcttatgta caataaaaa 
tgggacgtc caaagatac agtgaccct gtttacggg 
cgcggccga catcacaaa atacggact gattgataa 
atttaatgg acagtccca tctgaccca ttacacgtc 
cgataagtg taacagttt aatgggttc cgatgggtc 
gattttccc gccacattt gaccaaaaa cagcaccat 
ttacgtgta cgataagga cttgtgccg gattttgcc 
tctggtata tgagaaaac ggtcaaagg cagcgacga 
catccccgc cttccgctt caccccgcc cctcaacgt 
cttcgggga cgtggacga aaaccccga aaatctgtg 
tttctgtcc acatggacc gccctgcgc cccctccgg 
ctttttcaa cgtgtcgct ttgccaata cgattcgcc 
cattttact ctccttccc ccatttcta cctagccaa 
tgacagcta tcgcaccgc cctcgacgg catcacccc 
gcccgagcc ggaaaaaca caagtttta catcgacgt 
gcaaccggt catgggtac tgcgatgag cgccaaagc 
tcgcgtcca aatcaactt agccgtgtc gcaagtggt 
tgatatcaa acaagtggc cactttccc cgacattat 
tttccccat tatgtggtt tgaggaggg gcttgacgg 
tttaccgaa ggaaatgac cggtttgat gggcttggc 
tacgacggt cccgcccat tgcgagggc ggcgcttgc 
tggcgtttt gtttgttat gggggcggt gcttctcct 
aatcgccgt ctggaggtt agtccgagg ggccaatcg 
gctcagctc gttgcatct agcaccagg tcacgtggg 
accgcccac caataaaaa caaagacgt tcccatggg 
aaacgtacc taggaatta attcgagag gtgattgaa 
cgaacaacg aagcaatat tttcttgtt ataggttag 
gacaatttg ctcattacg gttaagtta gttaggtgt 
tgtatattc tagtacaaa aatttgttg cttggtcga 
aattgtgcc ttacacgtg atttaaaaa gacaaaatg 
gcggttttt tgtacattg ttattgtat aaataattt 
tagaattga ttgttgtag ggaaagtga tttttttat 
ttgtttaga tttttctat tgagtccgt cccttttaa 
ctgtatagt ttcgatagt catttttta tttcaactg 
tattttatt ggttatgtg tatatttgg acaataaaa 
tgtattttc tacccgagc ttttgaatt tggcgctac 
agcggtggc gccatctac tgtttaatt aaccggttt 
attaaaaaa atatataaa ttgaagatt t

    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