Status
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Gene information
General information
TC006901 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.

NW_015450753.1: 1655..3635
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
    		TC006901
    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_01099

    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: 20.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

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

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 2
    mature egg deposition blocked number 1st lateral oviduct: 3 - Number of animals showing the phenotype: 1
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 10.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006901 RA
      MDFGTLLHT AQKNEKGSK KEPVRYYST KFEPPKKEQ 
RSKQLSENI KKFLAKKEA EEREKKLEA LKKKEELLA 
LRAKDKKAT RRVNVMLKR TKSANQSVL QDAVDANNT 
SVTLAGPIQ PDEDDYGYV SQEAAAFYN KMMEKYSKM 
PDEPKFGLN KKKKISTDL NSTKERVKA AIEREREEA 
NMPHKRRRK HKEEEEEIE NEKQEVAPK PKPKPAAPP 
PLNFNDLLK LAEKKQFEP IIIEQKPKE EEKLFTKKQ 
KKELEREKE WRERKEGKL PPLEKPAGN KIPKVNNGD 
KAQALAKKN STDLIKKSQ VKVPEPTKK IVSNNQPIV 
DKKPVPSYT KPGSSSLNK VKDLNDVRK REAPKSGGR 
DVVAPKKPQ LELKPKQFP PKDLKPKQF PPPDVRRKE 
FPPRDVKRK PLVNKRRIL DDDEYDSEM DDFIDDGPE 
EGEDYSKYI SEIFGYDKS KYRNVDDDI DNMESTFAQ 
QMREEVIST KIGIMEDLE DMKKEEEEK RRKALMKKK 
RL
    CDS sequence
    • >TC006901 RA
      atggatttt ggtacgctt ttgcacacc gcccaaaaa 
aatgagaaa ggctccaag aaagagccc gtcaggtac 
tacagtacc aaattcgag cctccaaag aaggaacaa 
cgcagtaaa caattgtcg gaaaacatc aaaaagttt 
ttagcgaag aaggaggcc gaagagagg gaaaagaaa 
ctcgaagct ttgaagaaa aaggaggaa ttgttggct 
ctgagggct aaggacaaa aaagcaaca agacgggtt 
aatgtgatg ttaaagcgt actaaatct gcaaaccaa 
tccgtgctt caagacgct gttgatgct aacaacact 
tcggtgact ttagccggc cccattcag ccagacgag 
gatgactat ggctatgtc tcccaggaa gcggcagcg 
ttttacaat aaaatgatg gaaaagtac agcaaaatg 
ccagacgag cccaaattt ggcttaaac aagaagaag 
aaaataagc acggattta aacagcact aaggagcgg 
gtcaaggct gctattgag agagaacgg gaggaggca 
aacatgccc cacaaaagg cgaagaaag cacaaagag 
gaagaggaa gaaattgag aatgagaag caggaagtg 
gccccaaag cctaaaccg aaacctgca gcgccgccc 
cctttaaac ttcaatgac ttgctgaaa ctggccgag 
aagaagcaa ttcgaaccc ataataatt gaacaaaag 
ccaaaggaa gaggagaaa ttgtttacg aagaagcag 
aaaaaggag ctggagagg gagaaggaa tggagggag 
cggaaggag ggaaaactt ccgcctttg gagaaacca 
gctgggaac aaaatcccc aaagtgaac aacggggat 
aaagcgcaa gctttggca aagaaaaat tcaacagat 
ctgattaag aaaagtcaa gttaaggtg ccagaaccc 
acaaagaaa attgtgtca aataaccag cccattgtt 
gataagaaa cctgtgcct tcctacacg aaaccgggg 
tcaagtagt ttaaacaaa gtcaaagat ttgaatgat 
gtgagaaag agagaagcg ccaaaatcg ggtgggaga 
gacgttgtt gcacctaaa aaacctcaa cttgagctt 
aaacctaaa caatttccc ccgaaagat cttaaaccg 
aagcagttc ccgcctcct gatgtcagg agaaaagag 
tttccgcct cgtgatgtt aagagaaaa ccgcttgtc 
aataaaagg cgtattttg gatgatgat gagtacgat 
tctgaaatg gatgacttt attgatgac gggccggaa 
gaaggcgaa gattactct aaatacatt agcgagatt 
tttggatat gataaatcg aaatataga aatgttgac 
gatgatatt gataatatg gaatcaacg tttgcacag 
caaatgagg gaagaagtg atcagtaca aaaattggt 
atcatggag gatttagaa gatatgaag aaagaggaa 
gaagagaaa aggcggaaa gccttgatg aaaaaaaag 
agattataa
    mRNA sequence
    • >TC006901 RA
      ataatggcg catgatgac atgtacgac gtaaaagtg 
aaatatgtc atgacataa atcggattt ttctcagtt 
tttttgagc aattagcac ggaaaaaca tggattttg 
gtacgcttt tgcacaccg cccaaaaaa atgagaaag 
gctccaaga aagagcccg tcaggtact acagtacca 
aattcgagc ctccaaaga aggaacaac gcagtaaac 
aattgtcgg aaaacatca aaaagtttt tagcgaaga 
aggaggccg aagagaggg aaaagaaac tcgaagctt 
tgaagaaaa aggaggaat tgttggctc tgagggcta 
aggacaaaa aagcaacaa gacgggtta atgtgatgt 
taaagcgta ctaaatctg caaaccaat ccgtgcttc 
aagacgctg ttgatgcta acaacactt cggtgactt 
tagccggcc ccattcagc cagacgagg atgactatg 
gctatgtct cccaggaag cggcagcgt tttacaata 
aaatgatgg aaaagtaca gcaaaatgc cagacgagc 
ccaaatttg gcttaaaca agaagaaga aaataagca 
cggatttaa acagcacta aggagcggg tcaaggctg 
ctattgaga gagaacggg aggaggcaa acatgcccc 
acaaaaggc gaagaaagc acaaagagg aagaggaag 
aaattgaga atgagaagc aggaagtgg ccccaaagc 
ctaaaccga aacctgcag cgccgcccc ctttaaact 
tcaatgact tgctgaaac tggccgaga agaagcaat 
tcgaaccca taataattg aacaaaagc caaaggaag 
aggagaaat tgtttacga agaagcaga aaaaggagc 
tggagaggg agaaggaat ggagggagc ggaaggagg 
gaaaacttc cgcctttgg agaaaccag ctgggaaca 
aaatcccca aagtgaaca acggggata aagcgcaag 
ctttggcaa agaaaaatt caacagatc tgattaaga 
aaagtcaag ttaaggtgc cagaaccca caaagaaaa 
ttgtgtcaa ataaccagc ccattgttg ataagaaac 
ctgtgcctt cctacacga aaccggggt caagtagtt 
taaacaaag tcaaagatt tgaatgatg tgagaaaga 
gagaagcgc caaaatcgg gtgggagag acgttgttg 
cacctaaaa aacctcaac ttgagctta aacctaaac 
aatttcccc cgaaagatc ttaaaccga agcagttcc 
cgcctcctg atgtcagga gaaaagagt ttccgcctc 
gtgatgtta agagaaaac cgcttgtca ataaaaggc 
gtattttgg atgatgatg agtacgatt ctgaaatgg 
atgacttta ttgatgacg ggccggaag aaggcgaag 
attactcta aatacatta gcgagattt ttggatatg 
ataaatcga aatatagaa atgttgacg atgatattg 
ataatatgg aatcaacgt ttgcacagc aaatgaggg 
aagaagtga tcagtacaa aaattggta tcatggagg 
atttagaag atatgaaga aagaggaag aagagaaaa 
ggcggaaag ccttgatga aaaaaaaga gattataat 
tgtagctgt tgtgattgt ggcatgact ttgtgatag 
gtgattgat aacttttag gaacacttg aaattgtaa 
tttttattg ttatccttt tattacgga aaatttaaa 
ctttaatat atactagac cgccat

    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