Status
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Gene information
General information
TC005099 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: 1695667..1708737
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
    		TC005099
    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_00804

    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: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    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: 100.0% (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: 7 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 7 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005099 RA
      MADSNSLLE DGQSLQDMM NDGVGLTYN DFIILPGYI 
DFTPDAVDL TTQLTKKIT LKSPLVSSP MDTVTESSM 
AIAMALCGG IGVIHHNCS PSYQANEVL KVKKYKHGF 
IHNPVVLCP TNTVADVLK TKKEQGFSG IPITEDGKM 
GGKLVGIVT SRDLDFLED QNYSNSKLE TIMTKLEDL 
VTAQSGVTL PEANSILAK SKKGKLPIV NAEGNLVAL 
MARTDLKKA KSYPTASKD DNKQLIVGA AIGTRDEDK 
ERLKLLVNA GVDVIVLDS SQGNSVYQI EMIKYIKKS 
YPSLQVIAG NVVTAKQAK NLIDAGADA LRCGMGSGS 
ICITQEVMA VGRAQATAV YRVAQYAKR YGVPVIADG 
GIQSIGHII KALALGASS VMMGSMLAG TSEAPGEYY 
FSDGVRLKK YRGMGSIEA MNRKDAMGS AMNRYFHSD 
ADKLKVAQG VSGSIVDKG SVFRFVPYL QCGIRHGCQ 
DIGVKSLTK LKELIDCGE VRFEKRTHS AQLEGNVHG 
LFSYEKRLF
    CDS sequence
    • >TC005099 RA
      atggctgac agcaacagt ttgcttgaa gatggccaa 
tcactccaa gacatgatg aacgatggc gttggactc 
acttacaat gactttata atcctccca ggatatatc 
gattttaca ccggacgca gttgacttg acgacccaa 
ttgaccaaa aaaataacg ctcaaatcg ccgcttgtt 
tcgtctccg atggacact gtgacagaa tcgtcaatg 
gcgattgca atggcgctt tgtggtggg attggggtg 
attcatcac aattgctcc ccctcgtat caagccaac 
gaagtactt aaagtaaaa aaatacaaa cacggattt 
attcataat ccggtcgtt ttgtgtccg acaaatacg 
gttgctgat gtgctcaaa actaagaag gaacaaggt 
ttttcgggc attccgatc actgaagat ggaaaaatg 
ggcggaaag cttgttgga attgtgacg tcgagagat 
cttgatttt cttgaagat caaaattac tcaaactct 
aaactcgaa actataatg accaaacta gaagatctc 
gtaacggct cagtctgga gtgaccctt cccgaagcc 
aactcaatc cttgccaaa agcaaaaag ggcaaactc 
ccaatcgta aacgccgaa ggcaacctc gttgcctta 
atggcccga accgatttg aaaaaagcg aaaagctac 
cccacagca tctaaagac gataataaa caattgatc 
gtcggagca gctattgga acacgcgac gaagacaaa 
gaacgactg aaactccta gtcaatgcc ggagttgac 
gttattgtt ctcgattcc tcgcaagga aattcagtt 
tatcaaata gaaatgatc aaatatatt aaaaaatcg 
tatccgagc ctgcaagtg attgctggg aatgtggta 
accgccaaa caggcgaag aatttaata gatgctggt 
gccgatgcg ctacgttgt ggcatgggg agtgggagt 
atttgcata acgcaggag gtgatggcc gttgggagg 
gcacaagct acagcggtc tacagggtg gcgcagtat 
gcgaagaga tacggagtg cctgttatt gcagatggg 
gggattcaa tcgattggg cacataatc aaggctttg 
gcattgggg gcatcttct gtgatgatg gggtcgatg 
ctggccggt acctccgaa gcacccggc gaatattac 
ttttctgat ggtgtaaga ttaaaaaaa tataggggt 
atgggcagt attgaagca atgaaccgg aaagatgcc 
atgggttct gccatgaac agatacttc cacagcgat 
gccgacaaa ctaaaagtg gctcaaggt gttagtgga 
agtattgta gacaaggga tctgttttc cgcttcgtt 
ccatatttg caatgtgga attagacac ggctgtcaa 
gatatagga gtcaaatct ctgactaag cttaaagaa 
ttgatcgat tgtggggag gttcgattt gagaagaga 
acacattcg gcgcaattg gaaggaaac gttcatggt 
ttattctcg tacgagaaa agattgttt tag
    mRNA sequence
    • >TC005099 RA
      gttctttta cctctaaca gcttctgtg attggacgg 
ttatcgctc caagtccgg aatcctccc ttctgctcg 
atatttcac cgatataat caatagtag tccaaatgg 
ctgacagca acagtttgc ttgaagatg gccaatcac 
tccaagaca tgatgaacg atggcgttg gactcactt 
acaatgact ttataatcc tcccaggat atatcgatt 
ttacaccgg acgcagttg acttgacga cccaattga 
ccaaaaaaa taacgctca aatcgccgc ttgtttcgt 
ctccgatgg acactgtga cagaatcgt caatggcga 
ttgcaatgg cgctttgtg gtgggattg gggtgattc 
atcacaatt gctccccct cgtatcaag ccaacgaag 
tacttaaag taaaaaaat acaaacacg gatttattc 
ataatccgg tcgttttgt gtccgacaa atacggttg 
ctgatgtgc tcaaaacta agaaggaac aaggttttt 
cgggcattc cgatcactg aagatggaa aaatgggcg 
gaaagcttg ttggaattg tgacgtcga gagatcttg 
attttcttg aagatcaaa attactcaa actctaaac 
tcgaaacta taatgacca aactagaag atctcgtaa 
cggctcagt ctggagtga cccttcccg aagccaact 
caatccttg ccaaaagca aaaagggca aactcccaa 
tcgtaaacg ccgaaggca acctcgttg ccttaatgg 
cccgaaccg atttgaaaa aagcgaaaa gctacccca 
cagcatcta aagacgata ataaacaat tgatcgtcg 
gagcagcta ttggaacac gcgacgaag acaaagaac 
gactgaaac tcctagtca atgccggag ttgacgtta 
ttgttctcg attcctcgc aaggaaatt cagtttatc 
aaatagaaa tgatcaaat atattaaaa aatcgtatc 
cgagcctgc aagtgattg ctgggaatg tggtaaccg 
ccaaacagg cgaagaatt taatagatg ctggtgccg 
atgcgctac gttgtggca tggggagtg ggagtattt 
gcataacgc aggaggtga tggccgttg ggagggcac 
aagctacag cggtctaca gggtggcgc agtatgcga 
agagatacg gagtgcctg ttattgcag atgggggga 
ttcaatcga ttgggcaca taatcaagg ctttggcat 
tgggggcat cttctgtga tgatggggt cgatgctgg 
ccggtacct ccgaagcac ccggcgaat attactttt 
ctgatggtg taagattaa aaaaatata ggggtatgg 
gcagtattg aagcaatga accggaaag atgccatgg 
gttctgcca tgaacagat acttccaca gcgatgccg 
acaaactaa aagtggctc aaggtgtta gtggaagta 
ttgtagaca agggatctg ttttccgct tcgttccat 
atttgcaat gtggaatta gacacggct gtcaagata 
taggagtca aatctctga ctaagctta aagaattga 
tcgattgtg gggaggttc gatttgaga agagaacac 
attcggcgc aattggaag gaaacgttc atggtttat 
tctcgtacg agaaaagat tgttttagc aagagtgcg 
gtgggaatt aagttgtaa ataaatact tatgtgata 
taggtacga tcggtgtcg cattttctg atatttgta 
aatattgtg tatttccaa caatttgcg tttacactt 
ttaaacaat catttttgt tgtgaaagt attatggaa 
attttaata caatagaag catatttat ttaagacta 
tatatttat aagtgtacc tatattttt tatattagt 
tatgtttta ttaaaaaat tatgaaaat g

    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