Status
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Gene information
General information
TC011976 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: 9426071..9439670
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
    		TC011976
    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
    {{ blurEvidenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05139

    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)

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

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

    Adult morphology
    adult cuticle darker - Number of animals showing the phenotype: 7 (9 dpi)
    Days post injection

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

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment random number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

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

    Adult morphology
    adult cuticularisation darker - Number of animals showing the phenotype: 9


    Fertility
    egg production: number <50% of expected -
    ovary without detectable defects - Number of animals showing the phenotype: 4
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC011976 RA
      MGSLPQLSI LKGPTRPLV VSQLGRIFE KVAAGPAAS 
NIALIFEEN GQSRQLSYS QVDQITNKF ARVISETIK 
TKNLKPNSD GDHIIAVNM HPSDHLILV LLSIWKSGC 
AYLPLDHSF PASRIDHII QESKPVIVI YDEDSKNFP 
AKLSYEELL TASDGRSDK RLEDKERVY QKDDLAIVL 
YTSGSTGIP KGVRIPHKI ILNRLQWQF KTFPFSETE 
KVCVFKTAL TFVDSVCEI WGPLISGIS ILIVPKSVT 
LDPEKLIQK LDDYKIERL VLVPSLLRS ILMCLELKK 
NRTLLKNLK LWVCSGETL TTSLAEEFF RYFPENEYK 
LCNFYGSTE IMGDVTFYI ISGMQQLKN LLTVPIGAP 
VDNTIVYLL DPELRPVKT GDIGELFVS GLNLASGYV 
NNRDKEKFL ENQLAIDPI FSKLYRTGD FARLQNDVL 
LYEGRTDSQ VKIRGHRVD LSEVEKAVS GVEGVEKAV 
VLCYQPGEM NQALLAFVK SSALMNENQ IENILRSKL 
TSYMVPQVI LVESIPLLV NGKIDRQAL LKSYENTNN 
NDDSSVEIE IDYSGVKPA QMAAAKVLF DTVASVLNR 
SARSAISLD SNFYEIGGN SLNSIYTIT RLNEEGYQI 
SIGDFLSAI DLGEVLERM TSSNDIHCS PPTYTSELL 
KNEHKSAVL DIITTSFYQ KADLEQWLM PDIFESDYK 
ELMDALWEP LVEKALSFV AKAESGKII GVGLNFDAR 
DEPDVQITS KLTVIFEFL ETVEGPVRD KCLPGGKGK 
ILHSFMMGT HSSLSPKEN VAVMQFMED EVLKLATER 
HFEGIFTTN TSPLTQQLG TDVYHYQTL LDYQVNRYV 
ASDNTRPFG MAPDSQRAI VQWKPIKSD IVVDV
    CDS sequence
    • >TC011976 RA
      atgggttcc cttccccaa ctctcaatt ctaaaggga 
ccaacgcgg cctttggtg gtctcccaa ctgggccga 
attttcgaa aaagttgcg gccggccct gcagccagc 
aacattgcc ctcatcttc gaagaaaat ggccaaagc 
cgccaatta tcctactcg caagtcgac caaatcacg 
aataaattt gcccgggtt ataagcgag acgatcaaa 
acgaaaaat ctgaaaccg aattccgat ggcgatcac 
ataattgcc gtcaatatg cacccctct gatcactta 
atcctggtt ttgttatca atttggaaa tccggctgc 
gcctattta cctctggac cattctttc ccggcctca 
aggattgac cacataatc caggaatcc aagcctgtc 
atcgttatt tatgacgaa gatagcaaa aatttcccc 
gccaagttg tcctatgag gaattgtta actgcaagt 
gacggaagg agtgataag agactcgag gataaagag 
agagtttat caaaaagac gacttggct atagttttg 
tacacgtcg ggaagtacg gggattccc aaaggagtg 
agaatcccg cataaaatt atcctcaat cggctacag 
tggcagttc aaaacgttc ccgttttct gaaaccgaa 
aaagtttgc gttttcaaa accgccctc acttttgtt 
gacagtgtt tgcgaaatc tgggggccg ctaataagc 
ggaatttcg attttaatt gtccccaaa agtgtgact 
cttgatcct gaaaaactt atccaaaag ctggacgat 
tacaaaatt gagagacta gtccttgta ccctcactt 
ttacgctca attctgatg tgtctcgag ttgaagaaa 
aatcggacc ttgctgaaa aacctgaaa ttgtgggtt 
tgttccggt gaaaccctc accacgagt ttagccgag 
gagtttttc cgctatttt cccgaaaac gaatacaag 
ttgtgcaat ttttacgga agtactgaa attatgggc 
gatgtgaca ttttacata atttcaggg atgcaacag 
ctgaaaaat ttgctcact gttccgatt ggtgctccg 
gttgataac acaattgtt tacttgttg gacccggag 
ctgcgtccg gtgaaaacc ggagacatc ggcgaactc 
ttcgtcagc ggtctaaac ctggcgtcc ggttacgtt 
aacaaccgc gataaggaa aagttcctg gagaaccag 
ctcgccata gacccgatt ttctccaaa ttgtaccgc 
actggtgat ttcgcacgt ttacaaaac gacgtgttg 
ttgtacgaa gggaggacc gactcccag gtgaaaatc 
cggggtcac cgagttgac ctctccgag gtcgaaaag 
gcggttagt ggggtcgaa ggtgtggaa aaagctgtt 
gttctgtgc taccaaccc ggagagatg aatcaagcg 
cttttagca ttcgtcaaa agcagcgct ttgatgaac 
gaaaatcaa atcgagaat attttgagg agtaagctg 
acttcgtac atggttccg caagttata ttagttgaa 
agcattcct ttgttggtt aatggcaaa atcgataga 
caggccctg ctgaagagc tacgaaaat actaacaat 
aacgacgat tcttctgtc gaaatcgag attgactat 
tctggagtg aagccggcc caaatggcc gcggctaaa 
gttctcttc gataccgtg gcttccgtt ttaaacaga 
tcggctcgt tcggcgatt tccctcgat tcaaacttt 
tacgaaatt gggggtaac tcactcaac tccatttac 
accatcacc agactcaac gaagaggga tatcaaata 
agtatcgga gatttctta tcagcgatt gatttagga 
gaagttttg gagcgtatg acttcgtct aatgatatt 
cattgttcg ccgccaacg tacacgtct gaactcctc 
aaaaacgag cacaaatca gcggttctt gacattatt 
acgacgagt ttttaccag aaggccgac ttggagcaa 
tggctaatg ccagacatt ttcgagtcg gactataag 
gagcttatg gacgctctt tgggagccg ctcgttgag 
aaagcttta agtttcgtg gcgaaagca gagtcgggg 
aaaataatc ggagtggga ctgaatttc gatgcaagg 
gatgaaccg gatgtacaa attacttcg aaattgact 
gtgatattt gagttcctt gaaactgtt gagggtccc 
gtgagagac aagtgtctg ccgggcggc aaaggcaaa 
atcttgcac tcctttatg atgggcact cattcaagt 
ttatcgccc aaagagaat gtagcggtt atgcaattt 
atggaagac gaagtgctt aagttggcg acagaaaga 
cacttcgag ggaatattt acgacgaat acgagccct 
ttgactcag caattggga accgacgtt tatcattac 
cagacatta ctcgactat caagtaaat cgatatgtt 
gcttcagat aatacaagg ccgtttgga atggcaccg 
gattcacaa agagcaatc gtgcagtgg aagccaatt 
aaaagtgac attgtagta gatgtttaa
    mRNA sequence
    • >TC011976 RA
      tagttacct tttaaacca ccggtcatc ttgttcttg 
tgttaaacc tgtcttgga tactacaac gtgaccaaa 
gagaaaaaa atgggttcc cttccccaa ctctcaatt 
ctaaaggga ccaacgcgg cctttggtg gtctcccaa 
ctgggccga attttcgaa aaagttgcg gccggccct 
gcagccagc aacattgcc ctcatcttc gaagaaaat 
ggccaaagc cgccaatta tcctactcg caagtcgac 
caaatcacg aataaattt gcccgggtt ataagcgag 
acgatcaaa acgaaaaat ctgaaaccg aattccgat 
ggcgatcac ataattgcc gtcaatatg cacccctct 
gatcactta atcctggtt ttgttatca atttggaaa 
tccggctgc gcctattta cctctggac cattctttc 
ccggcctca aggattgac cacataatc caggaatcc 
aagcctgtc atcgttatt tatgacgaa gatagcaaa 
aatttcccc gccaagttg tcctatgag gaattgtta 
actgcaagt gacggaagg agtgataag agactcgag 
gataaagag agagtttat caaaaagac gacttggct 
atagttttg tacacgtcg ggaagtacg gggattccc 
aaaggagtg agaatcccg cataaaatt atcctcaat 
cggctacag tggcagttc aaaacgttc ccgttttct 
gaaaccgaa aaagtttgc gttttcaaa accgccctc 
acttttgtt gacagtgtt tgcgaaatc tgggggccg 
ctaataagc ggaatttcg attttaatt gtccccaaa 
agtgtgact cttgatcct gaaaaactt atccaaaag 
ctggacgat tacaaaatt gagagacta gtccttgta 
ccctcactt ttacgctca attctgatg tgtctcgag 
ttgaagaaa aatcggacc ttgctgaaa aacctgaaa 
ttgtgggtt tgttccggt gaaaccctc accacgagt 
ttagccgag gagtttttc cgctatttt cccgaaaac 
gaatacaag ttgtgcaat ttttacgga agtactgaa 
attatgggc gatgtgaca ttttacata atttcaggg 
atgcaacag ctgaaaaat ttgctcact gttccgatt 
ggtgctccg gttgataac acaattgtt tacttgttg 
gacccggag ctgcgtccg gtgaaaacc ggagacatc 
ggcgaactc ttcgtcagc ggtctaaac ctggcgtcc 
ggttacgtt aacaaccgc gataaggaa aagttcctg 
gagaaccag ctcgccata gacccgatt ttctccaaa 
ttgtaccgc actggtgat ttcgcacgt ttacaaaac 
gacgtgttg ttgtacgaa gggaggacc gactcccag 
gtgaaaatc cggggtcac cgagttgac ctctccgag 
gtcgaaaag gcggttagt ggggtcgaa ggtgtggaa 
aaagctgtt gttctgtgc taccaaccc ggagagatg 
aatcaagcg cttttagca ttcgtcaaa agcagcgct 
ttgatgaac gaaaatcaa atcgagaat attttgagg 
agtaagctg acttcgtac atggttccg caagttata 
ttagttgaa agcattcct ttgttggtt aatggcaaa 
atcgataga caggccctg ctgaagagc tacgaaaat 
actaacaat aacgacgat tcttctgtc gaaatcgag 
attgactat tctggagtg aagccggcc caaatggcc 
gcggctaaa gttctcttc gataccgtg gcttccgtt 
ttaaacaga tcggctcgt tcggcgatt tccctcgat 
tcaaacttt tacgaaatt gggggtaac tcactcaac 
tccatttac accatcacc agactcaac gaagaggga 
tatcaaata agtatcgga gatttctta tcagcgatt 
gatttagga gaagttttg gagcgtatg acttcgtct 
aatgatatt cattgttcg ccgccaacg tacacgtct 
gaactcctc aaaaacgag cacaaatca gcggttctt 
gacattatt acgacgagt ttttaccag aaggccgac 
ttggagcaa tggctaatg ccagacatt ttcgagtcg 
gactataag gagcttatg gacgctctt tgggagccg 
ctcgttgag aaagcttta agtttcgtg gcgaaagca 
gagtcgggg aaaataatc ggagtggga ctgaatttc 
gatgcaagg gatgaaccg gatgtacaa attacttcg 
aaattgact gtgatattt gagttcctt gaaactgtt 
gagggtccc gtgagagac aagtgtctg ccgggcggc 
aaaggcaaa atcttgcac tcctttatg atgggcact 
cattcaagt ttatcgccc aaagagaat gtagcggtt 
atgcaattt atggaagac gaagtgctt aagttggcg 
acagaaaga cacttcgag ggaatattt acgacgaat 
acgagccct ttgactcag caattggga accgacgtt 
tatcattac cagacatta ctcgactat caagtaaat 
cgatatgtt gcttcagat aatacaagg ccgtttgga 
atggcaccg gattcacaa agagcaatc gtgcagtgg 
aagccaatt aaaagtgac attgtagta gatgtttaa 
gaggatttt atttatttt cagtatttt gtgtatctc 
agaccatta ttgtaaata aaggcaatt agtgtag

    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