Status
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Gene information
General information
TC006428 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: 9058964..9066246
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
    		TC006428
    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
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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
    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_04139

    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
    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

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006428 RA
      MASVSTSFF IPDRSTPLP RPPEDEDSF PVICDRELH 
SLHRNVPAL RRRDVDTAT IKQHYYPEG GWGWLVCGA 
AFLAHLLTS GFQLAFGLL YLYTMKFLI RKNQDKDFY 
VMATAWLGA LCLCISFLT APLIVAVCR RKSTRLAAA 
FGGLVTALA CLFTSFAVQ FHQALLSYG LVLGLGAGV 
VRETSGLML GHYFKRRRE FVEMVAQAG AGVGIALFS 
VLYKEAVGK LGWRLGLQA ITGLLSLAF FLPVVYRSA 
NLYHPQRRA ITHLKNQRK KMKEKKTHA KAKKPPMFD 
FTPLKSRGL RVLMVACAF AALGIYAPV FYLVYQGYK 
EGLEDSALV LLQTFMGFA SALGCVGFG LVTVRPSSQ 
CLISRQYLC QAAMVGIGV SLLALSAVQ GYHGYVLFV 
WLYGTCLGG YTYSLKMFA LERVRGRHF TKAWSFIQG 
AKSLPVLLG IPITGYINQ TYPKAGYYF SFVTTIVGA 
SLMFLVGTR KDHINSNTN NCNLNGCNI ANLNECACN 
LALNYNNIC TPDLQPYNF CRQSANHYE RLFNYGHMD 
RSDFHRHSL RHHYLPKSL SYAANIDRS PYHQYPVHY 
HDYVRLTNP KSRNMLRPS KSVPEGLAR WDYCGSYRR 
PIIRNVQVI EQITTSV
    CDS sequence
    • >TC006428 RA
      atggctagt gtttccacg tcgtttttt attccagac 
cgcagcacg cctctccct cggccgccg gaagacgaa 
gattcgttt cctgttatt tgcgaccga gaattgcat 
tcattgcat cgaaacgtg cccgcactt cgacggagg 
gacgtcgat acggccact attaagcag cactactac 
cctgaagga ggatggggt tggttggtg tgcggagct 
gccttctta gcccacctt ctcacctcc ggcttccaa 
ttggcgttc ggactgctg tatttgtat accatgaag 
ttcctcatt aggaaaaat caagacaaa gatttctac 
gtgatggca actgcttgg ttgggagct ttgtgcctg 
tgtatctct tttctgacc gctccatta attgtggcc 
gtttgccga agaaagtcc acgagattg gcggccgcg 
ttcgggggc cttgtgacg gctctggcg tgccttttt 
acgtctttt gccgtacag ttccaccag gcactgctc 
agctacggg ctggtgctg ggcctgggc gccggagtc 
gtccgggag acttccggg ctgatgctg ggccactat 
ttcaagcgg aggagagag ttcgtggaa atggtggcg 
caagccgga gccggggtc gggatcgcc ttgttttcg 
gtgctttat aaagaagca gtggggaaa ctgggatgg 
agattaggc ttgcaagcc atcaccggt ttactctcc 
ctcgcattt tttctccct gttgtctac cgatcggcc 
aatttgtac cacccgcag cgacgtgcc attacacat 
ttaaaaaat caacgcaaa aaaatgaaa gaaaagaag 
acgcacgcc aaagctaag aaaccgcca atgttcgat 
ttcacgccg ctgaaaagt cgcggattg cgggtattg 
atggtggct tgcgctttc gctgcgtta ggaatttac 
gcccccgtt ttctacctt gtgtaccag gggtataag 
gagggatta gaagacagt gctttagtt ctcttacaa 
actttcatg gggtttgcg tcagcttta ggctgcgtc 
ggatttggg ctggtgact gtgaggccc agctcgcag 
tgcttaatt tccaggcaa tatttgtgt caagcggcc 
atggtaggg atcggagtg tctcttctg gcgctaagt 
gccgttcag ggataccac gggtacgtt ttgtttgtc 
tggctgtat ggcacttgt ctcgggggc tacacctac 
tctctgaaa atgtttgct ttggagcga gtgcgcggc 
cgccacttc accaaagct tggagcttt atccaaggt 
gctaagtcc cttcctgtg cttttagga atccccata 
accggttat attaatcaa acttatccc aaagcaggg 
tattatttc agtttcgtg acgacgatc gtcggcgcc 
agtttaatg tttctggtc ggcacccgc aaagaccac 
atcaatagc aacaccaat aattgcaac ctgaacggc 
tgcaatatc gccaacttg aacgagtgc gcttgcaac 
ctggccctt aattacaac aacatctgc acgcccgac 
ctgcaaccg tacaatttc tgtcgacaa agcgccaac 
cactacgag cggcttttc aattacggg cacatggat 
cgaagcgat ttccaccgg cattcgctg cgccaccat 
tacctgccg aaaagtctc agctacgcc gccaacatc 
gacagatcg ccctaccac caatatccg gtgcattat 
cacgattac gtgcgactg accaacccc aaaagcagg 
aacatgctg cggcccagc aaaagtgtt cctgaagga 
ctcgcgcga tgggattat tgcggctcg tacaggagg 
ccgataatt aggaacgtt caagttatc gaacaaatc 
accacttcg gtgtaa
    mRNA sequence
    • >TC006428 RA
      gtccgctct taaatcatg gctagtgtt tccacgtcg 
ttttttatt ccagaccgc agcacgcct ctccctcgg 
ccgccggaa gacgaagat tcgtttcct gttatttgc 
gaccgagaa ttgcattca ttgcatcga aacgtgccc 
gcacttcga cggagggac gtcgatacg gccactatt 
aagcagcac tactaccct gaaggagga tggggttgg 
ttggtgtgc ggagctgcc ttcttagcc caccttctc 
acctccggc ttccaattg gcgttcgga ctgctgtat 
ttgtatacc atgaagttc ctcattagg aaaaatcaa 
gacaaagat ttctacgtg atggcaact gcttggttg 
ggagctttg tgcctgtgt atctctttt ctgaccgct 
ccattaatt gtggccgtt tgccgaaga aagtccacg 
agattggcg gccgcgttc gggggcctt gtgacggct 
ctggcgtgc ctttttacg tcttttgcc gtacagttc 
caccaggca ctgctcagc tacgggctg gtgctgggc 
ctgggcgcc ggagtcgtc cgggagact tccgggctg 
atgctgggc cactatttc aagcggagg agagagttc 
gtggaaatg gtggcgcaa gccggagcc ggggtcggg 
atcgccttg ttttcggtg ctttataaa gaagcagtg 
gggaaactg ggatggaga ttaggcttg caagccatc 
accggttta ctctccctc gcatttttt ctccctgtt 
gtctaccga tcggccaat ttgtaccac ccgcagcga 
cgtgccatt acacattta aaaaatcaa cgcaaaaaa 
atgaaagaa aagaagacg cacgccaaa gctaagaaa 
ccgccaatg ttcgatttc acgccgctg aaaagtcgc 
ggattgcgg gtattgatg gtggcttgc gctttcgct 
gcgttagga atttacgcc cccgttttc taccttgtg 
taccagggg tataaggag ggattagaa gacagtgct 
ttagttctc ttacaaact ttcatgggg tttgcgtca 
gctttaggc tgcgtcgga tttgggctg gtgactgtg 
aggcccagc tcgcagtgc ttaatttcc aggcaatat 
ttgtgtcaa gcggccatg gtagggatc ggagtgtct 
cttctggcg ctaagtgcc gttcaggga taccacggg 
tacgttttg tttgtctgg ctgtatggc acttgtctc 
gggggctac acctactct ctgaaaatg tttgctttg 
gagcgagtg cgcggccgc cacttcacc aaagcttgg 
agctttatc caaggtgct aagtccctt cctgtgctt 
ttaggaatc cccataacc ggttatatt aatcaaact 
tatcccaaa gcagggtat tatttcagt ttcgtgacg 
acgatcgtc ggcgccagt ttaatgttt ctggtcggc 
acccgcaaa gaccacatc aatagcaac accaataat 
tgcaacctg aacggctgc aatatcgcc aacttgaac 
gagtgcgct tgcaacctg gcccttaat tacaacaac 
atctgcacg cccgacctg caaccgtac aatttctgt 
cgacaaagc gccaaccac tacgagcgg cttttcaat 
tacgggcac atggatcga agcgatttc caccggcat 
tcgctgcgc caccattac ctgccgaaa agtctcagc 
tacgccgcc aacatcgac agatcgccc taccaccaa 
tatccggtg cattatcac gattacgtg cgactgacc 
aaccccaaa agcaggaac atgctgcgg cccagcaaa 
agtgttcct gaaggactc gcgcgatgg gattattgc 
ggctcgtac aggaggccg ataattagg aacgttcaa 
gttatcgaa caaatcacc acttcggtg taacgtaac 
ggttccggt gctaattct agtcatttt agtcactcg 
ttcgtggat ttgtgagga gtagattat ccaatttag 
attactttg tacctaaaa agcgaaact tcggtggct 
ggaaacgag tgttcttta atgtatttc aaattcttg 
ccttgcgtt tgtgctaaa agcgactcg atttaagac 
gaccagaca tatctataa tccactggc cccgagttt 
taaaattta aaggacacg ttattttat tatttagtt 
accctcatt ttaaaaatt cgggtcact tttaataca 
agcaaaagt caatcgtct tgactaata tttaaactg 
ttgaccaga ttttatagc aatacacta tggttgtga 
ccactttat gacgaatct agacgtact atagtagaa 
tttatcgtg ggaacaaaa tacacttac tctagaaca 
aacattagc gaaacatta aagttgaat agaataatt 
aattgtcgc tttatattt tataaaagc cgattcttt 
attgattga atttgtaat ctgttgaaa ttttgttat 
aatttattt gttattaaa ttgattgtt gcattattt 
atttagatg cgaataaag agattcttt gaac

    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