Status
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Gene information
General information
TC005837 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_007423.3: 6973708..6975442
Sequence information
Transcripts / Proteins (2) 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
    		TC005837
    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_00941

    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
    cuticle remnants with some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    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: 30.0% (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: 3 (11 dpi)
    Days post injection

    adult lethality - (41 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005837 RA
      MSSSEDELF DIDWGASNV FDCFDYVDP YVLSPQIQA 
VLENDIVGL RRLLQEGKS VNINDNKGN TPLHHAVQS 
QGNLTSIFN CLIELEDIR LDAANFNGE TPLMLALKN 
AYYVRKLLQ KGADPNLRY PNGDSLLHK ATDVGVVRL 
LLEHGADIN AQNFNGETP LFHACQQKE IELVHLYLY 
HGADVSISD NCGLLAFDI CPESVDSLF YLTFDEHTE 
GTEVTSEVL DVVYHEFGF CEFYRTLLN IAKIRNHCC 
KFDSYAGRN FMAFFTYDL NLSIDMVER FPKENLEAQ 
CFAKLLKFF NVIKYKDKF PHLFEMFSR KLGVSAVPS 
LVELSRNAA RKFIISKLK VEDNVQFLT VVNHLPVPN 
VVKQIIIYQ KEIYNI
    • >TC005837 RB
      MSSSEDELF DIDWGASNV FDCFDYVDP YVLSPQIQA 
VLENDIVGL RRLLQEGKS VNINDNKGN TPLHHAVQS 
QGNLTSIFN CLIELEDIR LDAANFNGE TPLMLALKN 
AYYVRKLLQ KGADPNLRY PNGDSLLHK ATDVGVVRL 
LLEHGADIN AQNFNGETP LFHACQQKE IELVHLYLY 
HGADVSISD NCGLLAFDI CPESVDSLF YLTFDEHTE 
LTRNVTYTR KQLNEFVAQ ISLPWCEVF FNLVDSFIN 
REFANSMQV FRLMSARTH TCDVVTIED FLYIFLYFY 
VRDNSLCPL LRNIHLRGQ LLIQFAMKF VCYCASQGT 
EVTSEVLDV VYHEFGFCE FYRTLLNIA KIRNHCCKF 
DSYAGRNFM AFFTYDLNL SIDMVERFP KENLEAQCF 
AKLLKFFNV IKYKDKFPH LFEMFSRKL GVSAVPSLV 
ELSRNAARK FIISKLKVE DNVQFLTVV NHLPVPNVV 
KQIIIYQKE IYNI
    CDS sequence
    • >TC005837 RA
      atgtccagc agcgaagac gaactcttc gatatcgac 
tggggggct tccaatgta ttcgactgc ttcgattac 
gtggacccg tatgtttta tcgccccaa attcaggca 
gttttggag aacgacatc gttggactt cgccgcctc 
ttgcaagaa ggaaaatca gtcaacatc aacgacaac 
aaaggcaac actcctctt caccacgct gtacaatca 
cagggtaat ttaacatcc atttttaat tgtttgatc 
gaactggag gacattcga ctcgacgcc gccaatttc 
aacggggaa accccccta atgctcgcc ctcaaaaac 
gcgtattac gttcgcaaa ttgctgcaa aagggggcc 
gaccccaac ttgcgctac cccaacggg gactcttta 
ttgcacaaa gccacagat gtgggggtc gtgcggttg 
ttgttggaa catggggct gatattaac gcgcaaaat 
ttcaacggc gagactcct ctatttcat gcttgccaa 
caaaaggaa atagaattg gtacacttg tatttatac 
cacggggct gatgtgtcg attagtgac aattgcggt 
ttattggca tttgatatt tgtcccgaa agtgtggac 
agtcttttt tacttaact tttgacgaa cacactgag 
gggactgaa gtcacttca gaggttttg gacgtggtt 
taccacgag tttggtttt tgcgaattt taccgaacg 
ttactgaat attgccaaa attcgaaat cattgttgc 
aagtttgat tcgtatgcg ggtcgcaat tttatggcg 
tttttcacc tacgatttg aatttaagc attgatatg 
gtcgagcgt ttcccaaaa gaaaatctt gaagcgcag 
tgttttgca aaattgttg aaattcttt aatgttata 
aagtacaag gataagttt ccgcatttg tttgagatg 
tttagtcgt aaacttgga gtatcagca gtgccttct 
ttggtcgag ttgagtcga aatgccgct cgcaaattt 
atcatttcc aagctcaaa gtggaggat aatgtccag 
tttttgact gttgttaac caccttccc gttcctaac 
gttgttaaa caaataatt atttaccaa aaagaaatt 
tacaatatt taa
    • >TC005837 RB
      atgtccagc agcgaagac gaactcttc gatatcgac 
tggggggct tccaatgta ttcgactgc ttcgattac 
gtggacccg tatgtttta tcgccccaa attcaggca 
gttttggag aacgacatc gttggactt cgccgcctc 
ttgcaagaa ggaaaatca gtcaacatc aacgacaac 
aaaggcaac actcctctt caccacgct gtacaatca 
cagggtaat ttaacatcc atttttaat tgtttgatc 
gaactggag gacattcga ctcgacgcc gccaatttc 
aacggggaa accccccta atgctcgcc ctcaaaaac 
gcgtattac gttcgcaaa ttgctgcaa aagggggcc 
gaccccaac ttgcgctac cccaacggg gactcttta 
ttgcacaaa gccacagat gtgggggtc gtgcggttg 
ttgttggaa catggggct gatattaac gcgcaaaat 
ttcaacggc gagactcct ctatttcat gcttgccaa 
caaaaggaa atagaattg gtacacttg tatttatac 
cacggggct gatgtgtcg attagtgac aattgcggt 
ttattggca tttgatatt tgtcccgaa agtgtggac 
agtcttttt tacttaact tttgacgaa cacactgag 
ctaacaaga aacgttacc tacactaga aaacaactg 
aatgagttc gtggctcaa atcagccta ccttggtgt 
gaggttttt ttcaattta gttgattcg tttattaac 
cgagaattt gcaaattca atgcaagtc tttcgttta 
atgagtgct agaacacat acttgtgac gtggtcaca 
attgaagat tttttgtac attttttta tatttttat 
gttcgggac aattcgctg tgtccgctt ttgcgaaat 
atccatctg agaggccag ttgttaata cagtttgcc 
atgaaattc gtgtgttat tgtgcaagt caggggact 
gaagtcact tcagaggtt ttggacgtg gtttaccac 
gagtttggt ttttgcgaa ttttaccga acgttactg 
aatattgcc aaaattcga aatcattgt tgcaagttt 
gattcgtat gcgggtcgc aattttatg gcgtttttc 
acctacgat ttgaattta agcattgat atggtcgag 
cgtttccca aaagaaaat cttgaagcg cagtgtttt 
gcaaaattg ttgaaattc tttaatgtt ataaagtac 
aaggataag tttccgcat ttgtttgag atgtttagt 
cgtaaactt ggagtatca gcagtgcct tctttggtc 
gagttgagt cgaaatgcc gctcgcaaa tttatcatt 
tccaagctc aaagtggag gataatgtc cagtttttg 
actgttgtt aaccacctt cccgttcct aacgttgtt 
aaacaaata attatttac caaaaagaa atttacaat 
atttaa
    mRNA sequence
    • >TC005837 RA
      cgctttcgc taaaaacgg gagataaac agagagata 
cacttttcc ctgtaaaca attaaagtg aggttatga 
ttagtgccc agaaaaact ttttaatgt ttgattgta 
ataattgtt tttctcaag cttgggata accacaatg 
tccagcagc gaagacgaa ctcttcgat atcgactgg 
ggggcttcc aatgtattc gactgcttc gattacgtg 
gacccgtat gttttatcg ccccaaatt caggcagtt 
ttggagaac gacatcgtt ggacttcgc cgcctcttg 
caagaagga aaatcagtc aacatcaac gacaacaaa 
ggcaacact cctcttcac cacgctgta caatcacag 
ggtaattta acatccatt tttaattgt ttgatcgaa 
ctggaggac attcgactc gacgccgcc aatttcaac 
ggggaaacc cccctaatg ctcgccctc aaaaacgcg 
tattacgtt cgcaaattg ctgcaaaag ggggccgac 
cccaacttg cgctacccc aacggggac tctttattg 
cacaaagcc acagatgtg ggggtcgtg cggttgttg 
ttggaacat ggggctgat attaacgcg caaaatttc 
aacggcgag actcctcta tttcatgct tgccaacaa 
aaggaaata gaattggta cacttgtat ttataccac 
ggggctgat gtgtcgatt agtgacaat tgcggttta 
ttggcattt gatatttgt cccgaaagt gtggacagt 
cttttttac ttaactttt gacgaacac actgagggg 
actgaagtc acttcagag gttttggac gtggtttac 
cacgagttt ggtttttgc gaattttac cgaacgtta 
ctgaatatt gccaaaatt cgaaatcat tgttgcaag 
tttgattcg tatgcgggt cgcaatttt atggcgttt 
ttcacctac gatttgaat ttaagcatt gatatggtc 
gagcgtttc ccaaaagaa aatcttgaa gcgcagtgt 
tttgcaaaa ttgttgaaa ttctttaat gttataaag 
tacaaggat aagtttccg catttgttt gagatgttt 
agtcgtaaa cttggagta tcagcagtg ccttctttg 
gtcgagttg agtcgaaat gccgctcgc aaatttatc 
atttccaag ctcaaagtg gaggataat gtccagttt 
ttgactgtt gttaaccac cttcccgtt cctaacgtt 
gttaaacaa ataattatt taccaaaaa gaaatttac 
aatatttaa tgttatgat gaaataaat ttttgtaat 
tact
    • >TC005837 RB
      cgctttcgc taaaaacgg gagataaac agagagata 
cacttttcc ctgtaaaca attaaagtg aggttatga 
ttagtgccc agaaaaact ttttaatgt ttgattgta 
ataattgtt tttctcaag cttgggata accacaatg 
tccagcagc gaagacgaa ctcttcgat atcgactgg 
ggggcttcc aatgtattc gactgcttc gattacgtg 
gacccgtat gttttatcg ccccaaatt caggcagtt 
ttggagaac gacatcgtt ggacttcgc cgcctcttg 
caagaagga aaatcagtc aacatcaac gacaacaaa 
ggcaacact cctcttcac cacgctgta caatcacag 
ggtaattta acatccatt tttaattgt ttgatcgaa 
ctggaggac attcgactc gacgccgcc aatttcaac 
ggggaaacc cccctaatg ctcgccctc aaaaacgcg 
tattacgtt cgcaaattg ctgcaaaag ggggccgac 
cccaacttg cgctacccc aacggggac tctttattg 
cacaaagcc acagatgtg ggggtcgtg cggttgttg 
ttggaacat ggggctgat attaacgcg caaaatttc 
aacggcgag actcctcta tttcatgct tgccaacaa 
aaggaaata gaattggta cacttgtat ttataccac 
ggggctgat gtgtcgatt agtgacaat tgcggttta 
ttggcattt gatatttgt cccgaaagt gtggacagt 
cttttttac ttaactttt gacgaacac actgagcta 
acaagaaac gttacctac actagaaaa caactgaat 
gagttcgtg gctcaaatc agcctacct tggtgtgag 
gtttttttc aatttagtt gattcgttt attaaccga 
gaatttgca aattcaatg caagtcttt cgtttaatg 
agtgctaga acacatact tgtgacgtg gtcacaatt 
gaagatttt ttgtacatt tttttatat ttttatgtt 
cgggacaat tcgctgtgt ccgcttttg cgaaatatc 
catctgaga ggccagttg ttaatacag tttgccatg 
aaattcgtg tgttattgt gcaagtcag gggactgaa 
gtcacttca gaggttttg gacgtggtt taccacgag 
tttggtttt tgcgaattt taccgaacg ttactgaat 
attgccaaa attcgaaat cattgttgc aagtttgat 
tcgtatgcg ggtcgcaat tttatggcg tttttcacc 
tacgatttg aatttaagc attgatatg gtcgagcgt 
ttcccaaaa gaaaatctt gaagcgcag tgttttgca 
aaattgttg aaattcttt aatgttata aagtacaag 
gataagttt ccgcatttg tttgagatg tttagtcgt 
aaacttgga gtatcagca gtgccttct ttggtcgag 
ttgagtcga aatgccgct cgcaaattt atcatttcc 
aagctcaaa gtggaggat aatgtccag tttttgact 
gttgttaac caccttccc gttcctaac gttgttaaa 
caaataatt atttaccaa aaagaaatt tacaatatt 
taatgttat gatgaaata aatttttgt aattact

    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