Status
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Gene information
General information
TC006361 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: 7916810..7920604
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
    		TC006361
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01039

    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: 50.0% (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

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC006361 RA
      MTVPTPSEK LLTNGSTTP KRQNGQKSG LMKLSSYVL 
ALRPWSLSA SLMPTLLGS TIAYKYPGV TDFNYATLL 
LTIFTVVSV HGAGNVVNT YFDYVKGID NRKSDDRIL 
VDHILTKDE VVSLGALLY FAGCVGFIL LAALSPAKM 
EHLALVYFG GLSSSFLYT GGIGFKYIA LGDVLILIL 
FGPISVLFA FMSQTGRVE WATIYYAIP LALNTEAIL 
HSNNTRDSE SDKKVGIVT LAIIIGHTA SHVLYAFLL 
FTPYIMFMV ASLKYSKWF MLPLVTLPS AFKIEKQFR 
SNDIHSVPK KTAKLNLFF GVLYVLACS LVPALPYVT 
KR
    CDS sequence
    • >TC006361 RA
      atgacggtg cccaccccc agcgagaaa ctcctcacc 
aatggctcc accactccc aagcgccaa aacggccaa 
aaatcgggc ctcatgaag ctatcaagt tacgtgcta 
gccttgcgt ccgtggtcc ctcagtgcc agtctcatg 
cccacactg ttgggctcc accatagcg tacaaatac 
cccggagtt accgatttc aactacgcc accctcctg 
ctcacaatt ttcaccgtg gtgtcggtg cacggcgcc 
ggaaacgtc gtcaacacc tacttcgac tacgtcaag 
gggatcgac aaccggaaa tcggacgac cggatcctg 
gtggaccac attctgacc aaagacgag gtggtgtct 
ctgggggcc cttttatac tttgccggc tgtgtgggg 
ttcattctc ttggcggcg ttgagcccc gcgaagatg 
gagcacttg gctttggtc tatttcggg gggctgtcg 
tcgagcttc ctctacacg ggaggtata ggcttcaag 
tatatagcc ctcggggat gtgcttatt ttgattttg 
ttcggcccc atttcggtg cttttcgcc ttcatgtcg 
caaacgggg cgcgtcgag tgggcgacg atttactac 
gccatccct ctggccctt aatactgag gcgatttta 
catagtaat aacacaagg gactctgag tcggacaaa 
aaggtggga attgtgact ctggcgatt attatcggc 
cacactgcc tcgcacgtc ttgtacgcg tttttgttg 
ttcaccccg tatatcatg ttcatggtg gcctcgttg 
aaatactcg aaatggttc atgttgcct ctagtcacg 
cttcctagc gcttttaaa atcgaaaaa cagttcaga 
tccaacgat atacacagt gtgcccaaa aagactgcc 
aaattgaat ttgtttttc ggtgttttg tacgtgctg 
gcctgtagt ttggttcca gcgctgccg tacgtcacc 
aaaagatag
    mRNA sequence
    • >TC006361 RA
      tgtcaaatg tcataaaaa caccaactt ttgtaagaa 
aaataattt atttctgat ttaaaaaag tacacaatt 
ctcgattat caacaatgg ttaatgtaa tgaaaggcg 
ttttggtga cctgtgacc aggccatga aacaattcc 
ttttgtatt tagatgaga ctacaaaac taggccgaa 
aattcataa ttcaggact tggatgaaa accacttat 
ttatttcag ccgatattt tagagacat tacaggcaa 
aaatcgacg atctgatgg accaaatta gcttcccag 
tcgccgaaa aaagcaatt aattttttg taatttgca 
aaagtgagg ttatgtcat attgatgtg tggtcattc 
gaattataa ataaaaagc gcagcattt atataatga 
cgtgttttg ctataaata atatcgttg cgggccggt 
tttcgtcca tacttacgc aataaggca ctaattaac 
tgttttttc aaattgtcg gtacaaata atacagttc 
cctgtaaat tggaagtgg ctacaatta cgcttcttt 
gataaccga ctattctac agttgttac gccatcacg 
aacattttt acacacaaa tgataagaa tagaattaa 
gcaatagat aacggaaac gtgtcacta attataatt 
tttccctga tttaatagc cgccgtgac gtaaccaca 
gccacatgt caaacgtca caattgact tctttggtt 
atgttccgt ttgtcaaag ttataaaac gaaaaaacg 
cgtttctcg gccacaaat catcaagtg tgttaagtt 
ccgtgtcag tgcatttac ccccatcat gacggtgcc 
cacccccag cgagaaact cctcaccaa tggctccac 
cactcccaa gcgccaaaa cggccaaaa atcgggcct 
catgaagct atcaagtta cgtgctagc cttgcgtcc 
gtggtccct cagtgccag tctcatgcc cacactgtt 
gggctccac catagcgta caaataccc cggagttac 
cgatttcaa ctacgccac cctcctgct cacaatttt 
caccgtggt gtcggtgca cggcgccgg aaacgtcgt 
caacaccta cttcgacta cgtcaaggg gatcgacaa 
ccggaaatc ggacgaccg gatcctggt ggaccacat 
tctgaccaa agacgaggt ggtgtctct gggggccct 
tttatactt tgccggctg tgtggggtt cattctctt 
ggcggcgtt gagccccgc gaagatgga gcacttggc 
tttggtcta tttcggggg gctgtcgtc gagcttcct 
ctacacggg aggtatagg cttcaagta tatagccct 
cggggatgt gcttatttt gattttgtt cggccccat 
ttcggtgct tttcgcctt catgtcgca aacggggcg 
cgtcgagtg ggcgacgat ttactacgc catccctct 
ggcccttaa tactgaggc gattttaca tagtaataa 
cacaaggga ctctgagtc ggacaaaaa ggtgggaat 
tgtgactct ggcgattat tatcggcca cactgcctc 
gcacgtctt gtacgcgtt tttgttgtt caccccgta 
tatcatgtt catggtggc ctcgttgaa atactcgaa 
atggttcat gttgcctct agtcacgct tcctagcgc 
ttttaaaat cgaaaaaca gttcagatc caacgatat 
acacagtgt gcccaaaaa gactgccaa attgaattt 
gtttttcgg tgttttgta cgtgctggc ctgtagttt 
ggttccagc gctgccgta cgtcaccaa aagatagat 
gtacgagct cttattagt tgtatttat ttctattaa 
gttattttt tactgtgtt gaggaactg cgtcaaaag 
ggggcgcta gtgcgggtt tgcggcttg gggtccaag 
ccgcaatac cttctcatt ttcgtttgt tacgtcgag 
attattgta cttatgaca atgaacagt cacgatcat 
aaagaatgt catccctat aaactgttg ggtcgtaaa 
cgtcaataa acatgattt cgggttttt acttttgta 
acatcaacg atattctaa tcgtgtaaa ttaataaat 
gtagtctat ttactccaa gtatgatca aaactgtat 
tacgtaatg tgttagctt tttaagtag tacttattt 
acttatttt taaacaaaa gtaggtgta ctaaagttc 
aaaaccaac gttagttac attctgttc cagttgtta 
gccactttt aatttaaaa ttttaaata gtaccctct 
attttttga aacattttt gttataaat ttttactta 
tctttaaat aatcttttt tttgttaga aattttgcc 
tttaattta atgtttcta aaagtccta gtcttttgt 
caagtattt accaataaa attctaaaa aaaagtgat 
tatacaaaa ggacgaagt cgctcacag acaaaccga 
aaatggggt cttacttaa aacgaatca tccgttttt 
aaccgcaag ttgttaaag aaactcggc ttcgcctcg 
gctggaatt tttctttat tcaaaacgg ttgcaaaaa 
ataataacg atgtttctc catttatgg attctatca 
atatgaact tactaatat ttggtcctt cgagccgga 
taaagcagc catgttggc cgtgg

    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