Status
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Gene information
General information
TC006359 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: 7877777..7883679
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
    		TC006359
    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_04121

    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)

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

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     larva appendages shortened - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 80.0% (includes death as larva, prepupa, pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 7 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (41 dpi)
    Days post injection

    Pupal morphology
    oblique dorsal thoracic muscles structure shortened - Number of animals showing the phenotype: 9

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006359 RA
      MGNVDTKLN FRKAVVQLT SKSEPIDAN DDSFWEQFW 
SENVTNVQD IFTLVPAAE IRALREDAP SNLATLCYK 
AVEKLVKAV DSSCRTQHE QQTVLNCAR LLTRILPYI 
FEDPEWRGF FWSSLPSQG EDEDESVPL AQSLLNAVC 
DLLFCPDFT VVASRKSGP DKAEELSAI DSCEYIWEA 
GVGFAHSPP RSPVLDSNR TELLKLLLT CFSETMYQP 
PTDISQNPN KWIAHLTSS ENRHALPMF TSLLNTVCA 
YDPVGLGVP YNHLLFNDS LEPLVEAAL QILIVTLDH 
DTSSSSPAE GEDSTVPDN LFINYLSRI HRDEDFEFI 
LTGVTRLLN NPLVQTYLP NSTKKVHFH QELLVFFWK 
MCDYNKKFL YFVLKSSDV LEVLVPILY HLNDSRADQ 
SRVGLMHIG VFILLLLSG ERNFGVRLN KPYTATIPM 
DIPVFTGTH ADLLIIVFH KIITTGHQR LQPLFDCLL 
TILVNVSPY LKTLSMVAS TKLLHLLEA FSTPWFLFS 
SSTNHHLVF FLLEIFNNI IQYQFDGNS NLVYTIIRK 
RQVFHNLAN LPSDYGTIA KSLNKRTRS RMSSTTSHE 
NVAELAMEG SHPALPAEP GTLKATLPD TPGIGQMTE 
KEPAHPSYQ NEQLLTNGM ASITMNTPT ASTPEEPTN 
DNSEQKLSR SPSRQSVAT RNSLRVSAS GDKNPAHWT 
PTGEWVHSW KSKLPLQTI MRLLQVLVP QVEKICIDK 
GLTDESEIL KFLQHGTLV GLLPVPHPI LIRKYQANS 
GTTTWFRTY MWGVIYLRN VDPPVWYDT DVKLFEIQR 
I
    CDS sequence
    • >TC006359 RA
      atgggtaac gtcgacacg aaattgaat ttccgcaaa 
gcggtggtg caactgacg tccaaatca gagcccatt 
gatgcgaat gacgactcg ttttgggag caattctgg 
tccgagaac gttacaaac gtccaagac atattcact 
ctagtgcct gcggccgaa atccgggcg ctccgcgaa 
gacgcgccg tcgaatctc gccacctta tgctacaaa 
gcggtggag aagttagtc aaggctgtt gatagtagt 
tgtaggacg cagcacgag caacaaacc gtattgaat 
tgtgcgcgc ttgctgacg cggatcttg ccgtatatt 
tttgaggac cccgagtgg cggggattt ttctggtcg 
tcgctgccc agccaaggg gaggacgag gatgagtcg 
gtgccgttg gcacagtcg ttgctaaac gccgtttgt 
gacttgcta ttctgcccg gattttacg gtggtagcg 
agccgaaaa agtggccct gataaagcc gaggaattg 
tcggcgatt gatagctgc gagtacata tgggaggcc 
ggggtcggg tttgcgcac tcgccccca cgcagcccc 
gtgcttgac tccaaccga actgagcta cttaaacta 
ctgttgact tgctttagc gagactatg tatcagccc 
ccgaccgac atttcgcaa aatcccaac aaatggata 
gctcatttg acttcgtct gaaaaccgg catgctcta 
cccatgttt acctcgctt ttgaataca gtctgtgct 
tatgacccc gtgggcttg ggggtgcct tacaaccac 
ctacttttc aatgattcg cttgagcca ttggttgaa 
gccgctttg cagattttg attgtgacg ctggatcac 
gatacgagt tcgtcaagt ccggcagag ggcgaagat 
agtacggtc cccgataat ctctttatt aattacctc 
tcgcggata caccgcgac gaagacttc gaatttatt 
cttaccggt gttacaaga ttgttgaat aacccttta 
gtacagacg tacttgccg aattcgacc aagaaagtg 
cactttcat caggagttg ttggtgttt ttttggaaa 
atgtgcgat tataacaag aagtttttg tattttgtg 
ttgaaaagt agcgacgtt ttggaagta ctggtgcct 
attctctat catctcaac gattcgaga gccgatcag 
tctagggta ggcctgatg cacatagga gtatttatt 
ttgctttta ttgagcgga gagcgaaat ttcggcgtt 
cgcctcaac aaaccttac accgcaaca attccaatg 
gacattccc gtctttacc ggcacacat gccgacctt 
ctcatcata gtttttcac aaaataata accaccggc 
caccaaaga cttcaacca ctattcgat tgccttctc 
acaattcta gtcaatgta tctccatac ttgaaaacc 
ctctcaatg gtcgcaagc acgaagctt ttgcacctt 
ttagaagct ttcagtaca ccttggttc ctcttttcc 
tcctcgacc aatcaccac ctagtcttt ttccttctg 
gaaatcttc aacaacata atccagtac caattcgac 
ggtaactcg aacctggtg tataccata atccggaaa 
cgccaagtg ttccacaat ctggcaaac ctgccaagt 
gattatggc accattgca aaatcgcta aacaaacga 
acgcgaagt cgcatgtcg tcgacgacg agtcacgaa 
aacgtggcc gagttggcc atggaaggg tcgcatccg 
gcacttccg gcagaaccc ggaacgttg aaagccaca 
cttccggac acgcccgga atcggccaa atgaccgaa 
aaggaaccg gcacacccc tcgtaccaa aacgaacaa 
ttgttgacc aatggcatg gcgtcgatt actatgaac 
acgcccacg gcgagcacg cccgaagaa ccgaccaat 
gataacagt gagcagaag ttgagtcgc agtccgtcg 
cgccaatcc gtggccacg agaaacagt ttgcgggtc 
tccgcctcc ggggataag aaccccgcc cattggacg 
cccaccggc gaatgggtg cactcgtgg aagtccaaa 
ctgcccctc cagaccatc atgcggcta ttgcaggtc 
ttggtgccg caagttgag aaaatttgc atcgataaa 
ggcctaact gacgaaagc gaaattttg aaattcctg 
caacatgga actttggtg gggctgtta ccggtgccg 
caccctatt ctcatacga aagtatcag gcgaattcg 
gggacgacc acctggttt aggacgtac atgtggggc 
gtgatttat ttgaggaat gtcgatccg ccggtttgg 
tacgacacc gacgtaaaa ctatttgag attcagcga 
atctaa
    mRNA sequence
    • >TC006359 RA
      tatcaataa acgcgaaat tatcgcgtg tcgttgata 
acagttggc gttacgtca ctgtaaata gcccccacg 
tcgcggcaa accccacta cggcccctc gggtcattg 
acgtcgaac ctgtcaaag tgacgtttc gtaatgtca 
gtccaaatt gtcaaactt taacttaaa ttcgaaaaa 
tatgggtaa cgtcgacac gaaattgaa tttccgcaa 
agcggtggt gcaactgac gtccaaatc agagcccat 
tgatgcgaa tgacgactc gttttggga gcaattctg 
gtccgagaa cgttacaaa cgtccaaga catattcac 
tctagtgcc tgcggccga aatccgggc gctccgcga 
agacgcgcc gtcgaatct cgccacctt atgctacaa 
agcggtgga gaagttagt caaggctgt tgatagtag 
ttgtaggac gcagcacga gcaacaaac cgtattgaa 
ttgtgcgcg cttgctgac gcggatctt gccgtatat 
ttttgagga ccccgagtg gcggggatt tttctggtc 
gtcgctgcc cagccaagg ggaggacga ggatgagtc 
ggtgccgtt ggcacagtc gttgctaaa cgccgtttg 
tgacttgct attctgccc ggattttac ggtggtagc 
gagccgaaa aagtggccc tgataaagc cgaggaatt 
gtcggcgat tgatagctg cgagtacat atgggaggc 
cggggtcgg gtttgcgca ctcgccccc acgcagccc 
cgtgcttga ctccaaccg aactgagct acttaaact 
actgttgac ttgctttag cgagactat gtatcagcc 
cccgaccga catttcgca aaatcccaa caaatggat 
agctcattt gacttcgtc tgaaaaccg gcatgctct 
acccatgtt tacctcgct tttgaatac agtctgtgc 
ttatgaccc cgtgggctt gggggtgcc ttacaacca 
cctactttt caatgattc gcttgagcc attggttga 
agccgcttt gcagatttt gattgtgac gctggatca 
cgatacgag ttcgtcaag tccggcaga gggcgaaga 
tagtacggt ccccgataa tctctttat taattacct 
ctcgcggat acaccgcga cgaagactt cgaatttat 
tcttaccgg tgttacaag attgttgaa taacccttt 
agtacagac gtacttgcc gaattcgac caagaaagt 
gcactttca tcaggagtt gttggtgtt tttttggaa 
aatgtgcga ttataacaa gaagttttt gtattttgt 
gttgaaaag tagcgacgt tttggaagt actggtgcc 
tattctcta tcatctcaa cgattcgag agccgatca 
gtctagggt aggcctgat gcacatagg agtatttat 
tttgctttt attgagcgg agagcgaaa tttcggcgt 
tcgcctcaa caaacctta caccgcaac aattccaat 
ggacattcc cgtctttac cggcacaca tgccgacct 
tctcatcat agtttttca caaaataat aaccaccgg 
ccaccaaag acttcaacc actattcga ttgccttct 
cacaattct agtcaatgt atctccata cttgaaaac 
cctctcaat ggtcgcaag cacgaagct tttgcacct 
tttagaagc tttcagtac accttggtt cctcttttc 
ctcctcgac caatcacca cctagtctt tttccttct 
ggaaatctt caacaacat aatccagta ccaattcga 
cggtaactc gaacctggt gtataccat aatccggaa 
acgccaagt gttccacaa tctggcaaa cctgccaag 
tgattatgg caccattgc aaaatcgct aaacaaacg 
aacgcgaag tcgcatgtc gtcgacgac gagtcacga 
aaacgtggc cgagttggc catggaagg gtcgcatcc 
ggcacttcc ggcagaacc cggaacgtt gaaagccac 
acttccgga cacgcccgg aatcggcca aatgaccga 
aaaggaacc ggcacaccc ctcgtacca aaacgaaca 
attgttgac caatggcat ggcgtcgat tactatgaa 
cacgcccac ggcgagcac gcccgaaga accgaccaa 
tgataacag tgagcagaa gttgagtcg cagtccgtc 
gcgccaatc cgtggccac gagaaacag tttgcgggt 
ctccgcctc cggggataa gaaccccgc ccattggac 
gcccaccgg cgaatgggt gcactcgtg gaagtccaa 
actgcccct ccagaccat catgcggct attgcaggt 
cttggtgcc gcaagttga gaaaatttg catcgataa 
aggcctaac tgacgaaag cgaaatttt gaaattcct 
gcaacatgg aactttggt ggggctgtt accggtgcc 
gcaccctat tctcatacg aaagtatca ggcgaattc 
ggggacgac cacctggtt taggacgta catgtgggg 
cgtgattta tttgaggaa tgtcgatcc gccggtttg 
gtacgacac cgacgtaaa actatttga gattcagcg 
aatctaaac gtaatcaaa atattacct aatttattt 
ttttattta tttagatcg atttttcca tatttatgt 
aaatgtgca tttaatatt aagactgtt tacaaatgg 
cttttaaat gtactttta atgtagtta ccgttgttt 
atcttgtga tcagttcaa tttttaagt ggttggtat 
cacctgggc aaggctggg aaatatacg ttggaaata 
actttatat gtcgcagtt ttgaccgac tttacacca 
agatcactt attttaatc ctttactgt tgaagcttt 
tgtaacaag aaaaaaaat tgaagctat ttgtgtttc 
gtttttgta gaaatttat tttcaaatg tatacgttt 
gttacagtg tataacgga ttaaataaa taaatgact 
atattcaaa cctggggat ttgtatttt gagggttgg 
taaaaaacg attgtaggt acgctcttt attttattt 
tacatagct gactagttc atacgtaat attttacaa 
aaaaaatct acagttatt aaggattgc atttgacgc 
agtctcaaa tacaataac tagaaaaat gatgcaata 
aagaacaca aaaagaaat ggcctctgc atacgttga 
aaacttcat taaaaatct aatcatgtc taattaaaa 
agtagattt ttctgatat tttttgata tgtttacat 
gaccatgga aattccgca attcggtgg ccactttaa 
aatacacag tcaccgaaa caacagttt acgtcctag 
atttgaaat ttatattag gtcggtttt tgataaatg 
ttagaaaaa atataataa cattacgga t

    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