Status
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Gene information
General information
TC016315 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: 1001072..1007210
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
    		TC016315
    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_02571

    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: 90.0% (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

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

    adult lethality - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality late (L7) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC016315 RA
      MEKNSKGKS NTSSRSRFD SFNTINEKP VDDISLEAF 
YTPHSISAL AISIAIVIY FAFVRDTEN VENNIWAGM 
LCCIFFFLI ISVLAFPNG PFTRPHPAV WRVVFGMSV 
IYLMGCLFF LFQNYQTVK NILLWFDPS LKDFHIDMD 
KEYGVNCSD ITPERIWGH IDVFALGHY LGWLFKAIL 
IRHMGILWA ISFMWEITE IAFAHLLPN FIECWWDAL 
ILDVLICNG FGIWCGLKI CEKLEMREY KWVSIRDIH 
TTSGKIKRA MLQFTPESW TSVRWLDPK CSYMRVFAL 
CQLVLFWQT SELNTFFLK HVFELPASH PLVSARLIL 
IGVIVAPSV RQYYSYVTD TTCKRVGTQ CWVYGCIMV 
SEALICIKH GRELFERTQ AINIIVWLM VQLVISVAC 
VIGCVMWHR AGLARGNSR DLSPVKSVA GAKILFENS 
EEKED
    CDS sequence
    • >TC016315 RA
      atggagaag aattccaag ggaaaatcg aatacatcg 
tctcggagt agatttgac agtttcaac accataaat 
gagaaaccg gtggatgat atttcgtta gaagctttc 
tacacccca catagcatt tctgcactt gcaatatcg 
atagctatc gttatttat tttgctttc gttagggat 
actgaaaac gtcgaaaac aacatatgg gcaggcatg 
ctatgttgc atcttcttc ttcctcatc atctcagtg 
ttggcattc cccaacggt cccttcact cgtccacat 
ccggccgtt tggcgcgtc gtcttcggc atgagcgtc 
atctatctc atgggctgt ctctttttc cttttccaa 
aactaccaa accgtcaaa aacatcctt ctctggttc 
gatcccagc ctcaaagac ttccacata gacatggac 
aaagaatac ggcgtcaat tgctcggac atcaccccc 
gaacgcatc tggggccat atcgacgtc ttcgcatta 
ggccattat ttgggttgg ctgttcaaa gcaatttta 
atccggcac atgggcatt ttatgggcg atcagcttc 
atgtgggag atcaccgaa atcgccttc gcccatctc 
ctgccaaac ttcatcgag tgctggtgg gacgcattg 
attctcgac gtgttgata tgcaatggg tttggtatt 
tggtgcggg ttgaagatt tgcgaaaaa ttggaaatg 
cgcgagtat aaatgggtc agtattagg gacatccac 
accacgtcc ggcaaaatc aagcgtgcc atgctgcag 
ttcaccccg gagagttgg acttcggtc cggtggttg 
gacccgaag tgttcctac atgagggtt tttgcgctt 
tgtcagttg gtattgttc tggcaaacg tccgaactc 
aacacgttt ttcctcaaa catgttttc gaattgcca 
gcgtctcat ccactagtc agcgctagg ttgattctc 
attggtgtg atagtggcg ccctctgtg cgacagtac 
tacagctat gttacggat actacgtgt aaaagagtt 
ggtacccaa tgctgggtc tatgggtgc attatggtc 
tcggaagct ttgatttgt atcaaacat ggaagggag 
ttgtttgag cggactcaa gccattaat ataatcgtc 
tggttgatg gtacagctg gttatttct gtggcttgt 
gtgataggg tgtgtcatg tggcataga gctggattg 
gcacggggg aattccaga gatttgagt ccggtgaaa 
agtgtagct ggtgcgaaa attctcttt gagaacagt 
gaggaaaag gaagattga
    mRNA sequence
    • >TC016315 RA
      attcacgaa tgagtttcg gttcgcgct ttttgctga 
ttggaaaat cacatgtta tttcgaaca atcgtgttt 
agttccttg tgaatcagt taaaggtca gttcgcaag 
tgtagatgg tcgttaaag caataaaaa tagtacacc 
gaaatggag aagaattcc aagggaaaa tcgaataca 
tcgtctcgg agtagattt gacagtttc aacaccata 
aatgagaaa ccggtggat gatatttcg ttagaagct 
ttctacacc ccacatagc atttctgca cttgcaata 
tcgatagct atcgttatt tattttgct ttcgttagg 
gatactgaa aacgtcgaa aacaacata tgggcaggc 
atgctatgt tgcatcttc ttcttcctc atcatctca 
gtgttggca ttccccaac ggtcccttc actcgtcca 
catccggcc gtttggcgc gtcgtcttc ggcatgagc 
gtcatctat ctcatgggc tgtctcttt ttccttttc 
caaaactac caaaccgtc aaaaacatc cttctctgg 
ttcgatccc agcctcaaa gacttccac atagacatg 
gacaaagaa tacggcgtc aattgctcg gacatcacc 
cccgaacgc atctggggc catatcgac gtcttcgca 
ttaggccat tatttgggt tggctgttc aaagcaatt 
ttaatccgg cacatgggc attttatgg gcgatcagc 
ttcatgtgg gagatcacc gaaatcgcc ttcgcccat 
ctcctgcca aacttcatc gagtgctgg tgggacgca 
ttgattctc gacgtgttg atatgcaat gggtttggt 
atttggtgc gggttgaag atttgcgaa aaattggaa 
atgcgcgag tataaatgg gtcagtatt agggacatc 
cacaccacg tccggcaaa atcaagcgt gccatgctg 
cagttcacc ccggagagt tggacttcg gtccggtgg 
ttggacccg aagtgttcc tacatgagg gtttttgcg 
ctttgtcag ttggtattg ttctggcaa acgtccgaa 
ctcaacacg tttttcctc aaacatgtt ttcgaattg 
ccagcgtct catccacta gtcagcgct aggttgatt 
ctcattggt gtgatagtg gcgccctct gtgcgacag 
tactacagc tatgttacg gatactacg tgtaaaaga 
gttggtacc caatgctgg gtctatggg tgcattatg 
gtctcggaa gctttgatt tgtatcaaa catggaagg 
gagttgttt gagcggact caagccatt aatataatc 
gtctggttg atggtacag ctggttatt tctgtggct 
tgtgtgata gggtgtgtc atgtggcat agagctgga 
ttggcacgg gggaattcc agagatttg agtccggtg 
aaaagtgta gctggtgcg aaaattctc tttgagaac 
agtgaggaa aaggaagat tgatatttt taagactgt 
tgatattgt ttagttaat tttttacct cttgtgatc 
tagtcattt agagttgcg attgtttta ttaagtttt 
gttgagaag tgacggtat cacagttaa ggttgattt 
taacgggcg aatttatgt agaaaaata cataatgaa 
gttgctatt ttttcttat taacgcatc atgttgcgt 
taaaacaga tgttttgca tactttaca ttaaaacac 
ctattagtt tactcataa aaagcctga attagcagt 
agagaaagg tcgtcaaac tcttcgatc tcctccatg 
acgctgttt agatctaat aataattta gttaattat 
ttttaacta aggaaacca tctgtacgt gtaaaaaac 
atttcacag agttgaaat aaacaaaat tgagttttt 
tatgtaggc tgttcaaaa atgtttgtt catcaactc 
attctttca aattttcgt gcttaaata tagttaatt 
tttttaa

    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