Status
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Gene information
General information
TC005163 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_007416.3: 4565093..4568116
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
    		TC005163
    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_00808

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 5 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005163 RA
      MDIAKSIFS HRDREGYVG KEDHKKREI ELAISEDDV 
DDYFIENFS EGLDMNDLL TPSPGGPFS ALTPSMWPQ 
DIMAKLSVV PDDPNSQPE YRFDEFGFR VDEEDGPEQ 
NSNKLLGIP FVEDPQDRL QWVAHLEFS HNKEVSDLT 
WDKVEVKLP RTDKLRSMV RAGIPHSLR PQMWMRMSG 
ALEKKQQSE LCYKDIVKM SSNDSLMTS KQIEKDLLH 
TMPTNTCFS HINSTGIPR LRRILRGIA WLYPDIGYC 
QGTGMIAAS LLLLLEEEE AFWIMVTIV EDLLPASYY 
SSTLLGIQA DQRVLRTLI TNFLPDIDE TLKNHDIEL 
SLITLHWFL TLFASAVHM KILLRIWDL FFFEGSIVL 
FQVTLSMLK MKEPQLKQL ENSAQIFNA LSDIPGDID 
DVEKLFEVS QTLTTSLNE VMIETYRRR HLAYLMADQ 
GALVGNPEA APNLPKQHL ARRQVKKNK SVIQLLLFN 
ENTEDDIKC KNIKQTEIL VDLREAILQ IARHFLQVD 
PKLSTEISL VADYSTESH ATDHDNYIN VSKNRKRRA 
KALLDFERH DDDELGFRK NDIITIISQ KDEHCWVGE 
LNGLRGWFP AKFVQLLDE RSKQYSSAG DDSISETVT 
DLVRGTLCP VIKQVLEHG MKRPNFLGG PCHPWLFIE 
EAATKEVEK DFNSVYSRL VLCKTYRLD EDGKVLTPE 
ELLYRCVQS VNLSHDNAH AQMDVKLRS LICMGLNEQ 
VLHLWLEVL CSCSEVVQK WYHPWSFVY SPGWVQIKC 
DLRILSQLS FNLNPDWEL PVKKETNNQ PLKDGVRDM 
LVKHHLFSW DI
    CDS sequence
    • >TC005163 RA
      atggatatt gcaaaatcc attttcagt cacagagac 
cgcgagggt tacgtgggc aaagaagat cacaagaaa 
cgtgaaatt gagttggca atttcagag gacgatgtt 
gatgattac tttattgaa aatttctct gagggccta 
gacatgaac gacttgctt acacctagc cccggcggt 
ccattttcg gccctgacc cctagcatg tggcctcaa 
gacatcatg gcaaaatta agtgtagtt cctgacgac 
cccaattcc cagccagaa tacagattt gacgaattt 
gggttccgc gttgacgaa gaggacggt cctgagcaa 
aattctaac aagttgttg ggtattccc tttgtggag 
gacccccag gataggctt caatgggtt gctcattta 
gaattctct cataataag gaagtgtcg gatttgact 
tgggataag gttgaggtg aaattgccc agaactgac 
aagttgcgc tcaatggtc agagcgggg attccccac 
tctttgagg ccccaaatg tggatgcga atgtcaggg 
gcgttagaa aagaaacaa cagtcggaa ttgtgctac 
aaagatatc gttaaaatg tccagcaac gattcttta 
atgacctcg aagcaaatt gaaaaagat ttgttgcac 
acaatgccg acaaatacg tgttttagt cacattaac 
agcactggg attcccaga ttgagacgg attttgcga 
ggaatcgct tggctttat ccagatatt gggtattgt 
caagggact ggcatgatc gccgcgtcg cttcttctt 
ctacttgaa gaagaagaa gcgttttgg atcatggtg 
acaatagtt gaagatctc ttacctgcc tcttactac 
agctcaact ttgttaggg attcaagct gaccaaaga 
gttttgcgc acattaatc acgaatttt ttgcccgat 
atcgacgaa actctgaaa aaccatgac atagaacta 
tctctaata actctacac tggtttcta acgctcttt 
gccagcgct gtccatatg aaaatcttg ctaagaatc 
tgggactta tttttcttc gaaggatct atagtatta 
tttcaagta acgttaagc atgttgaaa atgaaagaa 
cctcagctg aagcaactc gaaaattct gctcaaatt 
tttaacgca ttgtccgac attcctgga gatatagac 
gacgtagag aaactgttt gaagtgtct caaacgttg 
acgacctct ttgaacgaa gtcatgata gagacttac 
aggcggcgt cacttggcc taccttatg gcggaccaa 
ggggcctta gtaggcaac ccggaggcc gcccccaac 
ttgcccaaa cagcacctc gccaggcgc caggtcaag 
aaaaacaaa tccgttatc caactcttg ctcttcaac 
gaaaacact gaagacgac atcaagtgc aaaaacatc 
aaacagacg gagattctg gtagacttg cgagaggcg 
attttacag atcgcgcgt cattttctg caagtggat 
ccgaaattg agcactgaa atttccctg gttgcggac 
tattcaacg gaaagtcat gcaaccgat cacgacaat 
tacataaac gtttcgaaa aatcgcaaa cggcgggct 
aaggctcta ttagatttc gagcgtcat gatgacgac 
gagttgggt tttcgtaaa aacgacatt attacgatt 
ataagtcag aaggatgag cactgttgg gtgggggaa 
ctgaacgga ttgagaggg tggtttccg gcaaaattt 
gtccagtta ttggacgaa agaagtaaa caatacagt 
agcgccggg gatgatagc atatccgaa acagtgact 
gacttagtc agggggacc ttatgccca gttattaag 
caagtatta gaacacggg atgaaaagg cctaacttt 
cttggtgga ccttgccat ccttggctt ttcatagaa 
gaagcggca acgaaagag gttgaaaaa gactttaat 
tcggtgtat agtaggcta gttctttgc aaaacatac 
agactggac gaagacgga aaagttcta actccggaa 
gaattgctg taccgctgc gtccagtcg gtcaacctg 
tctcatgac aatgcgcac gctcaaatg gatgttaaa 
ctgcgctcg ttgatttgt atgggtttg aacgagcaa 
gttttacac ttatggctc gaagtccta tgttcttgc 
agcgaagtt gttcagaaa tggtaccat ccgtggtcg 
ttcgtttac agcccgggt tgggtgcag atcaaatgt 
gatttacga attttatcg caactgtcg tttaatttg 
aaccccgac tgggagctt cccgttaaa aaagaaacc 
aataaccaa ccactgaag gatggtgtt cgcgatatg 
ttagtcaaa catcatctc ttcagttgg gacatctga
    mRNA sequence
    • >TC005163 RA
      aagcgtcaa aatttgttg tccatatgt tgttgttaa 
cacaaatag ataatttat taatttatg ttgtattga 
ccgttctta tctaaaatg aaaatttac ttttataaa 
agtgttaca accatatga ccggttaca ctggtagcg 
aaaatctga tttgttgtt aaaaatctg tgaaaaaat 
ggatattgc aaaatccat tttcagtca cagagaccg 
cgagggtta cgtgggcaa agaagatca caagaaacg 
tgaaattga gttggcaat ttcagagga cgatgttga 
tgattactt tattgaaaa tttctctga gggcctaga 
catgaacga cttgcttac acctagccc cggcggtcc 
attttcggc cctgacccc tagcatgtg gcctcaaga 
catcatggc aaaattaag tgtagttcc tgacgaccc 
caattccca gccagaata cagatttga cgaatttgg 
gttccgcgt tgacgaaga ggacggtcc tgagcaaaa 
ttctaacaa gttgttggg tattccctt tgtggagga 
cccccagga taggcttca atgggttgc tcatttaga 
attctctca taataagga agtgtcgga tttgacttg 
ggataaggt tgaggtgaa attgcccag aactgacaa 
gttgcgctc aatggtcag agcggggat tccccactc 
tttgaggcc ccaaatgtg gatgcgaat gtcaggggc 
gttagaaaa gaaacaaca gtcggaatt gtgctacaa 
agatatcgt taaaatgtc cagcaacga ttctttaat 
gacctcgaa gcaaattga aaaagattt gttgcacac 
aatgccgac aaatacgtg ttttagtca cattaacag 
cactgggat tcccagatt gagacggat tttgcgagg 
aatcgcttg gctttatcc agatattgg gtattgtca 
agggactgg catgatcgc cgcgtcgct tcttcttct 
acttgaaga agaagaagc gttttggat catggtgac 
aatagttga agatctctt acctgcctc ttactacag 
ctcaacttt gttagggat tcaagctga ccaaagagt 
tttgcgcac attaatcac gaatttttt gcccgatat 
cgacgaaac tctgaaaaa ccatgacat agaactatc 
tctaataac tctacactg gtttctaac gctctttgc 
cagcgctgt ccatatgaa aatcttgct aagaatctg 
ggacttatt tttcttcga aggatctat agtattatt 
tcaagtaac gttaagcat gttgaaaat gaaagaacc 
tcagctgaa gcaactcga aaattctgc tcaaatttt 
taacgcatt gtccgacat tcctggaga tatagacga 
cgtagagaa actgtttga agtgtctca aacgttgac 
gacctcttt gaacgaagt catgataga gacttacag 
gcggcgtca cttggccta ccttatggc ggaccaagg 
ggccttagt aggcaaccc ggaggccgc ccccaactt 
gcccaaaca gcacctcgc caggcgcca ggtcaagaa 
aaacaaatc cgttatcca actcttgct cttcaacga 
aaacactga agacgacat caagtgcaa aaacatcaa 
acagacgga gattctggt agacttgcg agaggcgat 
tttacagat cgcgcgtca ttttctgca agtggatcc 
gaaattgag cactgaaat ttccctggt tgcggacta 
ttcaacgga aagtcatgc aaccgatca cgacaatta 
cataaacgt ttcgaaaaa tcgcaaacg gcgggctaa 
ggctctatt agatttcga gcgtcatga tgacgacga 
gttgggttt tcgtaaaaa cgacattat tacgattat 
aagtcagaa ggatgagca ctgttgggt gggggaact 
gaacggatt gagagggtg gtttccggc aaaatttgt 
ccagttatt ggacgaaag aagtaaaca atacagtag 
cgccgggga tgatagcat atccgaaac agtgactga 
cttagtcag ggggacctt atgcccagt tattaagca 
agtattaga acacgggat gaaaaggcc taactttct 
tggtggacc ttgccatcc ttggctttt catagaaga 
agcggcaac gaaagaggt tgaaaaaga ctttaattc 
ggtgtatag taggctagt tctttgcaa aacatacag 
actggacga agacggaaa agttctaac tccggaaga 
attgctgta ccgctgcgt ccagtcggt caacctgtc 
tcatgacaa tgcgcacgc tcaaatgga tgttaaact 
gcgctcgtt gatttgtat gggtttgaa cgagcaagt 
tttacactt atggctcga agtcctatg ttcttgcag 
cgaagttgt tcagaaatg gtaccatcc gtggtcgtt 
cgtttacag cccgggttg ggtgcagat caaatgtga 
tttacgaat tttatcgca actgtcgtt taatttgaa 
ccccgactg ggagcttcc cgttaaaaa agaaaccaa 
taaccaacc actgaagga tggtgttcg cgatatgtt 
agtcaaaca tcatctctt cagttggga catctgaac 
tgtaaatat attctgtcc ataacg

    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