Status
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Gene information
General information
TC008961 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: 12728723..12731319
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
    		TC008961
    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
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    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
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    Name
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01446

    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: 40.0% (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

    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 1
    egg chamber shape rounded - Number of animals showing the phenotype: 3

    mature egg not present - Number of animals showing the phenotype: 3
    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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 30.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 2 (11 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
    • >TC008961 RA
      MDHSRTIIH IDLDCFYAQ VEMNKNPSL RTVPLGIQQ 
KNIVVTSNY TAREFGIKK CMLIPEAKK LCPSLVLVN 
GEDLHDYRQ TSYKVTNLL QKYTPLVER LGLDENYLD 
VTTLINEKL NQKSDLKLV GNVFGDTSD KCECGCTER 
LIIATTVAQ EIRDVIKSE LNLTSCAGI AHNKLLAKI 
AGARHKPNQ QTVVFPNSA LELILSLNA PNDIPGIGR 
ALFEQLKCI GVETIEELQ NVDLKRLET VLGQDKAKL 
VHELSLGID KSGVKPTGK PQSIGLEDS CRSISVETE 
VKIKLEQLL NRLLLLVEE DGRVPKTIK LTVRKFNKD 
NKMSHRETR QCNVNPSIF SSSQPNKEA KIMTTIMHL 
FNRIIDVKK PYHITLLGL SFTKFQEPP KNTLASFLR 
KDLEVQSVL SIENQNGVE DAESPVPST SKLAPTEGE 
SPTPSPKKL KLTNLVSKK RCFEDYYED CESPSKLKV 
ADLCLDSVS CPPDADKEV FKELPKEVQ KELWEDYKR 
RRASEMNFC SSQVKKTKP NTLLNYFIR NN
    CDS sequence
    • >TC008961 RA
      atggatcat tcccgtact ataattcac atcgatttg 
gactgtttt tacgcgcaa gtggaaatg aacaaaaac 
cccagcctc cgaacggtc ccgctagga atacagcag 
aaaaacatt gtcgtcact agcaattac acagcccgt 
gaatttggc ataaaaaag tgcatgtta atccccgag 
gcgaaaaaa ctgtgccct agcctcgtc ctagtcaac 
ggcgaggat ttacacgac tatcgccag acctcgtac 
aaagtaacc aatctgttg caaaagtac acccctctg 
gtggaacgc ctaggtctt gatgagaat tatctggac 
gtgacgacg ctaataaac gagaaattg aaccaaaaa 
agtgatctc aagcttgtg ggaaatgtg tttggagac 
acaagtgat aagtgtgag tgtggctgc acggagcgc 
ctgatcatt gccacaaca gtggctcag gaaatccgc 
gacgttatt aaatcggaa ctcaacctc acgtcctgt 
gcaggaatc gcccataac aaactttta gcaaaaatt 
gcaggagcg cgccacaaa ccaaaccaa caaactgtt 
gttttccca aatagtgcg ttagaattg attcttagc 
ttaaacgca ccgaacgat atcccggga attggcaga 
gcgttgttt gaacaatta aaatgcata ggggttgaa 
acaattgag gagctacaa aatgttgat ctcaagaga 
cttgaaacc gttttaggg caagataaa gctaagtta 
gtccatgag ttaagtttg ggtatcgat aaaagtggg 
gtcaagccg acggggaag ccccaaagc attggttta 
gaagacagt tgtaggtca atttctgta gaaaccgaa 
gtgaaaata aaattagaa cagttgtta aaccgtctc 
ttgcttctg gtggaagag gacgggcgt gtccccaaa 
accataaaa ctaacagtc cggaagttc aacaaagac 
aacaagatg agccaccga gagacgcgc caatgcaac 
gtcaacccc tcgattttc tcctcaagc caaccaaac 
aaagaagcc aaaatcatg accacgatc atgcacctt 
ttcaaccga ataatcgac gtcaaaaaa ccctaccac 
atcacatta ctcggcctt tctttcacg aagttccag 
gagcccccg aaaaacacg ctcgcttcg ttcctgcgc 
aaggacctt gaagtccag tcagtgctc agtatagag 
aaccagaac ggtgtcgaa gacgccgaa agtcccgtc 
ccttcaacc tcgaagttg gcaccaacg gaaggggaa 
tcacccaca ccctcaccg aaaaaacta aagttgaca 
aatctcgtg tcgaagaag cgctgtttt gaggactat 
tacgaagac tgcgagagt ccctcaaag ttgaaggtt 
gcggatttg tgcttggat tcggtgtcg tgcccccct 
gatgccgac aaggaggtg ttcaaggag ctgccgaag 
gaggtgcaa aaggagctg tgggaggat tacaagagg 
aggagggcc agtgagatg aatttttgc agcagtcaa 
gtgaagaaa accaagccc aacacgttg cttaattat 
tttatccgg aataactga
    mRNA sequence
    • >TC008961 RA
      aaatcagta gaaataaac ataacctca ctaaagttg 
caagagttc ttttatcag tatttaaaa acaatgtct 
tttgagatg gatcattcc cgtactata attcacatc 
gatttggac tgtttttac gcgcaagtg gaaatgaac 
aaaaacccc agcctccga acggtcccg ctaggaata 
cagcagaaa aacattgtc gtcactagc aattacaca 
gcccgtgaa tttggcata aaaaagtgc atgttaatc 
cccgaggcg aaaaaactg tgccctagc ctcgtccta 
gtcaacggc gaggattta cacgactat cgccagacc 
tcgtacaaa gtaaccaat ctgttgcaa aagtacacc 
cctctggtg gaacgccta ggtcttgat gagaattat 
ctggacgtg acgacgcta ataaacgag aaattgaac 
caaaaaagt gatctcaag cttgtggga aatgtgttt 
ggagacaca agtgataag tgtgagtgt ggctgcacg 
gagcgcctg atcattgcc acaacagtg gctcaggaa 
atccgcgac gttattaaa tcggaactc aacctcacg 
tcctgtgca ggaatcgcc cataacaaa cttttagca 
aaaattgca ggagcgcgc cacaaacca aaccaacaa 
actgttgtt ttcccaaat agtgcgtta gaattgatt 
cttagctta aacgcaccg aacgatatc ccgggaatt 
ggcagagcg ttgtttgaa caattaaaa tgcataggg 
gttgaaaca attgaggag ctacaaaat gttgatctc 
aagagactt gaaaccgtt ttagggcaa gataaagct 
aagttagtc catgagtta agtttgggt atcgataaa 
agtggggtc aagccgacg gggaagccc caaagcatt 
ggtttagaa gacagttgt aggtcaatt tctgtagaa 
accgaagtg aaaataaaa ttagaacag ttgttaaac 
cgtctcttg cttctggtg gaagaggac gggcgtgtc 
cccaaaacc ataaaacta acagtccgg aagttcaac 
aaagacaac aagatgagc caccgagag acgcgccaa 
tgcaacgtc aacccctcg attttctcc tcaagccaa 
ccaaacaaa gaagccaaa atcatgacc acgatcatg 
caccttttc aaccgaata atcgacgtc aaaaaaccc 
taccacatc acattactc ggcctttct ttcacgaag 
ttccaggag cccccgaaa aacacgctc gcttcgttc 
ctgcgcaag gaccttgaa gtccagtca gtgctcagt 
atagagaac cagaacggt gtcgaagac gccgaaagt 
cccgtccct tcaacctcg aagttggca ccaacggaa 
ggggaatca cccacaccc tcaccgaaa aaactaaag 
ttgacaaat ctcgtgtcg aagaagcgc tgttttgag 
gactattac gaagactgc gagagtccc tcaaagttg 
aaggttgcg gatttgtgc ttggattcg gtgtcgtgc 
ccccctgat gccgacaag gaggtgttc aaggagctg 
ccgaaggag gtgcaaaag gagctgtgg gaggattac 
aagaggagg agggccagt gagatgaat ttttgcagc 
agtcaagtg aagaaaacc aagcccaac acgttgctt 
aattatttt atccggaat aactgatgg ttttgtaga 
tttttttca ttaaatatg ttttaataa aaattggtt 
ttttcttcc acccagtca ttcctaaat tccagattg 
tatattttc gcgtggtgg taggatgtt aaaaataca 
caattttta aaattatct gtattttat tattataaa 
aaattcagt tttataata agtcatcaa taaaaaata 
atcttcaac agatttata ttggtttaa aataatccg 
taatccgct tgttgtttt tcaattgcc tgattgttt 
tcgagtcgt aaattgaag ccttttggt tgaaacgtg 
agtaaatgc cagcgcctg tttgcttat cagttttgt 
atctgatga cttcacctt gaggcttta tgtctgacg 
tttcaagaa agtcaagaa cactaatta catcgtcaa 
ggtcggtgt agtctttgg tgtaaatta ttacagcat 
gaaggggtt cagaatctg cagatgttg aaacttttg 
cgtcccaaa gatctccag tttttacag cttccttta 
ttttagtcc atatcccat ttacatctg cttttgata 
aaaacaaca tccatttgc ccactttgc agtaaccat 
tcacatttt ctaaactat atttgttgt tttttgccc 
acagccagg gggcttcac cttttgtga cgtctgtcg 
gattcagag tgcaatcat tctttattt cctttgatg 
ctacatcac atttaaaga caaattttg cgtccatat 
tttttctaa acctaaaaa actcgttca aaaattttt 
atttacttg gaggtctta cgtttgcgt gctatttta 
tgggtattt tactggtac tactgtcag taataccac 
cacttctaa agtagtgtc acaactttg cccatgcac 
ttgtgtatt attggttgc atcattaaa ttttcgaaa 
aacac

    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