Status
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Gene information
General information
TC012502 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: 9529315..9531126
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
    		TC012502
    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_07637

    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: 20.0% (includes death as pupa, adult)

    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: < 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: % (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
    • >TC012502 RA
      MLVLTTVLT AAAVFLLFY LFYCYKTIK QHIYSLISL 
SYLPGPPVN DIISGNILP LYTSAENIF KQLREWGRL 
YYPIYKLNA AHLAAANIL SPEDCELVL SNPTHMEKS 
AIYNLLHDW LGTGLLTST GLKWQTRRK ILTPAFHFS 
ILQQFVAIF NEETDKLVE VLKEECYKP FINVNAHVA 
QFTLKTIAE TAMGTKLRF TTRKETIYK QSIVDMGEF 
LLYRLLRCW LISKCIYVF NPRYYLEKK VTRRLHRFT 
KSVIAERQE NFKEIVVPE TDEVYTGKR RLAMLDLLL 
TAKNKEGLI DDEGIREEV DTFMFEGHD TTAAALGFA 
LMVLAGHKE VQDKIVEEM NEVLGDIKK KPTYQDLQE 
MKYLERCVK EVLRLYPSV HFISRKLGE DLVTHSGHK 
LAKGSIVNL HIYDLHHNP AIYPDPEKF DPDRFLPEN 
CQKRHPFAY LPFSAGPRN CIGKKFAML ELKAAICGI 
LANFTLEPI DIPETIVLV VDIVLRTKE GIKVRFIPR 
V
    CDS sequence
    • >TC012502 RA
      atgctcgtt ttgacaaca gtcttaaca gcagctgct 
gtttttctc ctcttctac ctgttttat tgctacaaa 
acaataaaa cagcacatc tacagcctc atctcgctc 
agctaccta ccaggaccc ccagtgaac gacatcatt 
tcaggaaat atcctccca ctgtacact agcgcagaa 
aacatcttc aaacagttg cgggaatgg ggccgactc 
tactacccc atctacaag ctaaatgcc gcccatttg 
gccgccgcc aacattctc agtccggaa gactgcgag 
ctggtttta tccaaccca actcatatg gaaaagtcg 
gcaatctat aatctcctc catgactgg ttagggacc 
gggcttttg acaagcact ggacttaaa tggcaaaca 
cgtcgaaaa atcttaacc ccagctttc catttcagt 
attttgcaa cagtttgtt gctattttt aacgaagaa 
accgataag cttgtcgaa gttttgaaa gaggagtgt 
tacaaacct ttcatcaat gtcaatgcg catgtagcc 
caatttacc ttgaaaact atcgcagag acagcaatg 
gggaccaaa ctcaggttt accacacga aaagagact 
atttacaag cagtcgatc gtcgacatg ggggagttc 
ctcttgtat cgtcttttg agatgttgg ctaatatct 
aaatgtatt tacgtcttc aatccgcgt tattatctt 
gagaaaaaa gttacaaga cgtttgcac cgatttacg 
aaaagtgta atcgccgaa cgacaggag aatttcaaa 
gaaattgta gtaccggaa acagatgag gtctacaca 
ggaaaaagg cgactcgcc atgttggat cttctgtta 
acagcaaag aacaaagag ggcctgatt gatgatgaa 
ggaattcgt gaagaggtc gatactttc atgtttgaa 
ggccacgac accactgca gcagctcta ggttttgcc 
ctaatggtc ctagcaggg cacaaggag gtccaggac 
aaaattgtg gaagaaatg aacgaagtc ttgggcgac 
attaagaaa aaacccact tatcaggat ctacaagag 
atgaaatac ctggaacga tgtgtgaag gaagtactg 
aggttgtac cccagtgtt cacttcatt tcgaggaaa 
ctgggcgag gatttggtc actcacagt ggtcacaag 
ttggccaaa ggctccatt gtcaatttg cacatctac 
gatttgcac cacaatcct gccatttat cctgatcct 
gagaagttt gatcctgat cggtttttg cctgagaac 
tgccagaaa aggcatcct ttcgcctac ttgcccttt 
agtgccggt cccagaaac tgtatcggg aaaaaattc 
gccatgttg gaactcaaa gcggccatt tgtggcatt 
ttggcgaac ttcactctc gaaccgatc gatatccct 
gagactatt gtactagtc gttgatata gtactgaga 
accaaagaa gggatcaag gttaggttt attccccga 
gtatga
    mRNA sequence
    • >TC012502 RA
      gtcaaacaa aaatgctcg ttttgacaa cagtcttaa 
cagcagctg ctgtttttc tcctcttct acctgtttt 
attgctaca aaacaataa aacagcaca tctacagcc 
tcatctcgc tcagctacc taccaggac ccccagtga 
acgacatca tttcaggaa atatcctcc cactgtaca 
ctagcgcag aaaacatct tcaaacagt tgcgggaat 
ggggccgac tctactacc ccatctaca agctaaatg 
ccgcccatt tggccgccg ccaacattc tcagtccgg 
aagactgcg agctggttt tatccaacc caactcata 
tggaaaagt cggcaatct ataatctcc tccatgact 
ggttaggga ccgggcttt tgacaagca ctggactta 
aatggcaaa cacgtcgaa aaatcttaa ccccagctt 
tccatttca gtattttgc aacagtttg ttgctattt 
ttaacgaag aaaccgata agcttgtcg aagttttga 
aagaggagt gttacaaac ctttcatca atgtcaatg 
cgcatgtag cccaattta ccttgaaaa ctatcgcag 
agacagcaa tggggacca aactcaggt ttaccacac 
gaaaagaga ctatttaca agcagtcga tcgtcgaca 
tgggggagt tcctcttgt atcgtcttt tgagatgtt 
ggctaatat ctaaatgta tttacgtct tcaatccgc 
gttattatc ttgagaaaa aagttacaa gacgtttgc 
accgattta cgaaaagtg taatcgccg aacgacagg 
agaatttca aagaaattg tagtaccgg aaacagatg 
aggtctaca caggaaaaa ggcgactcg ccatgttgg 
atcttctgt taacagcaa agaacaaag agggcctga 
ttgatgatg aaggaattc gtgaagagg tcgatactt 
tcatgtttg aaggccacg acaccactg cagcagctc 
taggttttg ccctaatgg tcctagcag ggcacaagg 
aggtccagg acaaaattg tggaagaaa tgaacgaag 
tcttgggcg acattaaga aaaaaccca cttatcagg 
atctacaag agatgaaat acctggaac gatgtgtga 
aggaagtac tgaggttgt accccagtg ttcacttca 
tttcgagga aactgggcg aggatttgg tcactcaca 
gtggtcaca agttggcca aaggctcca ttgtcaatt 
tgcacatct acgatttgc accacaatc ctgccattt 
atcctgatc ctgagaagt ttgatcctg atcggtttt 
tgcctgaga actgccaga aaaggcatc ctttcgcct 
acttgccct ttagtgccg gtcccagaa actgtatcg 
ggaaaaaat tcgccatgt tggaactca aagcggcca 
tttgtggca ttttggcga acttcactc tcgaaccga 
tcgatatcc ctgagacta ttgtactag tcgttgata 
tagtactga gaaccaaag aagggatca aggttaggt 
ttattcccc gagtatgag cgttgttac aataaagtt 
ttttaagca 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