Status
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Gene information
General information
TC013882 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: 2151090..2158683
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
    		TC013882
    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
    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
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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_02218

    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: 10.0% (includes death as pupa, adult)

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

    Fertility
    egg chamber segmentation/division irregular - Number of animals showing the phenotype: 4

    Comment: Contact between mid stage egg chambers is potentially to large. Maybe due to missing stalk cells?
    vitellogenic egg chamber late number increased - Number of animals showing the phenotype: 3

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20
    about 20
    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%
    larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    about 25
    larva partially dorsalnot closed - Penetrance (percentage of animals/eggs on slide): more than 80%

    larva appendages shape irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    larva appendages shortened - Penetrance (percentage of animals/eggs on slide): more than 80%

    head shape irregular - Penetrance (percentage of animals/eggs on slide): more than 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 100.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 10 (11 dpi)
    Days post injection

    Pupal morphology
    labrum size decreased - Number of animals showing the phenotype: 9

    head orientation irregular - Number of animals showing the phenotype: 8

    elytra blistered - Number of animals showing the phenotype: 2

    elytra necrotic - Number of animals showing the phenotype: 10

    wings shortened - Number of animals showing the phenotype: 2
    wings orientation irregular - Number of animals showing the phenotype: 2
    legs tarsus shape irregular - Number of animals showing the phenotype: 2

    wings potentially blistered - Number of animals showing the phenotype: 8

    Comment: animals are dead for too long to make definitive statements and wings are clotted with flour
    wings potentially shortened - Number of animals showing the phenotype: 8
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013882 RA
      MSNLRGDLD PSLDQSFEQ KMQYMSLND SNPRYGRIM 
GKAEPAVPP YHQKQKSMG AIESFVAEG PTQQKSNDY 
TLYERNNII ASSKYATPK QVETLVQKQ VEENDIYVQ 
CAKPQVPPN ASPTHSLSG SSQHSGSPR TSMANQTPV 
YENIDYYST RNYQPPYYH SMESNYRKA QPQVPSINR 
NITRDGEAL PVYENLQSL GQKSSGATP GPQVPSNQA 
PPPYPTQSY QQTYPQMHK TVLKAPYYP SYNKNLTKQ 
QLDEINSSD YVCMTGNIS HTLSTNVPF QTSTAKNYN 
REPGTGIAT TPSVLPKSP IVKEKVEVR PPPVPSPTP 
SACSTLSAG KLKMSGKTL LPYNVTPPR PRGPTEAER 
KIEEMTRQI EEEMEKHEE EGEYFGICH TCGEKVTGA 
GQACQAMGN LYHTNCFIC CSCGRALRG KAFYNVHGR 
VYCEEDYLY SGFQQTAEK CAICGHLIM EMILQAMGK 
SYHPGCFRC CICNECLDG VPFTVDVDN KIYCVNDYH 
RMFAPKCAS CGKGITPVE GTEETVRVV SMDKDFHVD 
CYICEECGM QLTDEPDKR CYPLEGRLM CRSCHIERL 
QHTPRQMHP VAATYQYTG
    CDS sequence
    • >TC013882 RA
      atgtcgaac cttcgcggt gacttggat ccttctttg 
gatcagtcg ttcgagcaa aaaatgcag tacatgtcc 
ctcaacgac tcgaatcca cggtacggc cgcatcatg 
gggaaggca gagccggcg gtgccccct taccaccag 
aaacaaaaa tcgatgggg gccatcgaa agtttcgta 
gcagaagga ccgacccag cagaaatca aacgattac 
actttgtat gaaagaaac aacatcatt gccagttct 
aaatacgcc actcctaaa caagtcgag accctagta 
cagaagcaa gtcgaagag aatgatatt tacgtccag 
tgcgctaag ccccaagta cccccaaat gcgagcccc 
actcactct ttaagcggc tcatcgcaa cactccggc 
agcccccga accagcatg gccaaccaa accccagtt 
tacgaaaac atcgactac tactccact cggaactac 
caaccccct tactaccac tccatggaa agtaactac 
cggaaagcc cagccccaa gtcccctca atcaaccgc 
aacatcacg cgtgatggt gaggctttg cccgtttac 
gaaaacttg cagtctttg gggcagaaa tccagcggg 
gctacgccg gggccccaa gtgccttca aatcaagca 
ccgcctcca taccccacc caatcgtac caacagacg 
tacccccaa atgcacaaa acggttctc aaagccccg 
tactacccc agttataat aaaaatttg actaaacaa 
cagctggat gaaatcaat agcagtgat tatgtctgt 
atgactggg aatatctcg cacactttg agtacgaac 
gtgccgttt caaacgtcc actgccaaa aactacaat 
agagagcct ggtactggc attgccact acgccgtca 
gttttgccc aaaagtccg attgtgaag gagaaagtt 
gaggtgaga ccgccaccg gttccgagc cccacgccc 
agcgcttgt agtactttg agtgctggg aaattgaaa 
atgagtgga aagactttg ttgccctat aatgttaca 
ccgccgagg ccaaggggg cccacggag gcagaaagg 
aaaattgag gagatgact aggcagatt gaagaggaa 
atggagaag catgaggag gaaggggaa tattttggt 
atttgccac acatgcggc gaaaaagtg accggcgcc 
ggtcaagca tgccaagca atgggcaac ttgtaccat 
acgaactgt tttatatgt tgttcgtgt ggtcgtgcc 
ttacgcggc aaagctttc tataatgtt catggaaga 
gtctactgc gaagaagac tacctgtat tcaggattt 
cagcaaact gcggaaaaa tgtgccatt tgtggccat 
ttaattatg gagatgatt ctacaagcc atgggcaag 
tcgtatcat ccagggtgt ttccgttgt tgcatttgt 
aacgaatgc ttagacggt gtgcctttc actgtggac 
gtcgacaat aaaatttat tgcgtcaat gattaccac 
aggatgttc gccccgaaa tgtgcttcg tgtggcaaa 
ggtataaca ccagttgag ggtacagaa gaaaccgtc 
cgagtggtc tccatggat aaggacttc cacgttgac 
tgttacata tgcgaagaa tgtggaatg cagttaact 
gacgaacct gacaagcgt tgttatcca cttgagggg 
cgtttgatg tgtcgaagt tgtcacatt gagcgcctc 
caacatacc cccaggcag atgcatcct gttgctgct 
acatatcag tatacgggc taa
    mRNA sequence
    • >TC013882 RA
      tcggtcgtt ttattacct catctccgg ttaattatg 
tatttattt atgagtaat tattgaaat atgtcgatt 
gagttactt aatttaagt gaaaactgc cgttctgtg 
attaaatca atttggtga taatgtcga accttcgcg 
gtgacttgg atccttctt tggatcagt cgttcgagc 
aaaaaatgc agtacatgt ccctcaacg actcgaatc 
cacggtacg gccgcatca tggggaagg cagagccgg 
cggtgcccc cttaccacc agaaacaaa aatcgatgg 
gggccatcg aaagtttcg tagcagaag gaccgaccc 
agcagaaat caaacgatt acactttgt atgaaagaa 
acaacatca ttgccagtt ctaaatacg ccactccta 
aacaagtcg agaccctag tacagaagc aagtcgaag 
agaatgata tttacgtcc agtgcgcta agccccaag 
tacccccaa atgcgagcc ccactcact ctttaagcg 
gctcatcgc aacactccg gcagccccc gaaccagca 
tggccaacc aaaccccag tttacgaaa acatcgact 
actactcca ctcggaact accaacccc cttactacc 
actccatgg aaagtaact accggaaag cccagcccc 
aagtcccct caatcaacc gcaacatca cgcgtgatg 
gtgaggctt tgcccgttt acgaaaact tgcagtctt 
tggggcaga aatccagcg gggctacgc cggggcccc 
aagtgcctt caaatcaag caccgcctc catacccca 
cccaatcgt accaacaga cgtaccccc aaatgcaca 
aaacggttc tcaaagccc cgtactacc ccagttata 
ataaaaatt tgactaaac aacagctgg atgaaatca 
atagcagtg attatgtct gtatgactg ggaatatct 
cgcacactt tgagtacga acgtgccgt ttcaaacgt 
ccactgcca aaaactaca atagagagc ctggtactg 
gcattgcca ctacgccgt cagttttgc ccaaaagtc 
cgattgtga aggagaaag ttgaggtga gaccgccac 
cggttccga gccccacgc ccagcgctt gtagtactt 
tgagtgctg ggaaattga aaatgagtg gaaagactt 
tgttgccct ataatgtta caccgccga ggccaaggg 
ggcccacgg aggcagaaa ggaaaattg aggagatga 
ctaggcaga ttgaagagg aaatggaga agcatgagg 
aggaagggg aatattttg gtatttgcc acacatgcg 
gcgaaaaag tgaccggcg ccggtcaag catgccaag 
caatgggca acttgtacc atacgaact gttttatat 
gttgttcgt gtggtcgtg ccttacgcg gcaaagctt 
tctataatg ttcatggaa gagtctact gcgaagaag 
actacctgt attcaggat ttcagcaaa ctgcggaaa 
aatgtgcca tttgtggcc atttaatta tggagatga 
ttctacaag ccatgggca agtcgtatc atccagggt 
gtttccgtt gttgcattt gtaacgaat gcttagacg 
gtgtgcctt tcactgtgg acgtcgaca ataaaattt 
attgcgtca atgattacc acaggatgt tcgccccga 
aatgtgctt cgtgtggca aaggtataa caccagttg 
agggtacag aagaaaccg tccgagtgg tctccatgg 
ataaggact tccacgttg actgttaca tatgcgaag 
aatgtggaa tgcagttaa ctgacgaac ctgacaagc 
gttgttatc cacttgagg ggcgtttga tgtgtcgaa 
gttgtcaca ttgagcgcc tccaacata cccccaggc 
agatgcatc ctgttgctg ctacatatc agtatacgg 
gctaaaaat taccgtttt taggttagt cttagccca 
ccagaaaca aactactta ttttgcttt tattaggaa 
tttaatgtg ccaggtttg gtagattgt gagggtgta 
atgatggtt cgctcattt gaaaagtaa ttattaata 
ggacgagag tatatttgc ttttagtgt gtagcttta 
atcttgtta ttgtcgttg gacaaggta ggaggaacg 
ctaaaagtg gtctagagt tttaggaat tgttatgta 
agttaaata gtaatttta cgacctaaa tgctaaatg 
tgattggtt ttaatttta attgtatga aacgccatg 
gttttaatg ggtatgaag tcaacgatg tacagtgca 
accttgatt tttctggaa aagttcgaa tgatcgagg 
ttgtactgt aattatttt ccgatttca tgtccgcct 
aattaacaa ttgcaatta agtgtttag gtgttaagt 
gtataaact tgttcctaa ggtattttt gtattattt 
ttgttgtat gaagctttt gccttttgg catctaaaa 
caattcatt tttatacaa agtttattt aaaatttgc 
tatgaattg ctgtgatat gttttattg acaggacaa 
gcttattga ttttcattc catttagtg tttttatgc 
ttttgtatt ataataaat acatacaca aatt

    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