Status
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Gene information
General information
TC005967 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: 4605818..4607678
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
    		TC005967
    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
    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_04048

    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: 2 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 8 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 8 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC005967 RA
      MTRFARAKG SKASNERVP EDATSWSEM KNQLLEKNQ 
ETEASKKRQ EADKQRESN YKAFLQQVE NDEVKNSKW 
AEFPQTDNK PKKKKNLKI VEEKSGIKR KADAPLEEN 
SKKVKKSVE SDTNDVTTP VKKFKKKNA PNILAKKGG 
KPKVKKTLK KGQLIEEKE KSAEGDVSC ETNAPKPSQ 
KINNNETEP VKKFKKKNT PNILAKKGG KPKAKQPVK 
KEPLTEEDR KKIEKKKEK RLRQLEKKK LNQPQAANL 
KKAKPRDNE KHERRKKPQ NSMIINGKE VPIAYVDGF 
PIKKEDAER IRQLRQQMI SKGLPRSEI KVALKLERR 
KAEKAFARE KKKVCFNCR KSGHNLSEC PELGKEIAE 
SSGTGICFK CGSTEHTHF ECKVVRGQE FKFAQCFIC 
HEQGHIARQ CPDNARGLY PKGGACKVC GDVTHLKKD 
CPKYQIQQQ QLQDNLQIE TISSSDNPD NLSKSDENS 
RIVINRPNK IIKFYFCFI
    CDS sequence
    • >TC005967 RA
      atgactcga tttgcacgt gcaaagggt tcgaaagca 
tccaacgag cgagttcct gaagatgcc acgtcctgg 
agtgagatg aaaaatcaa ttattggaa aaaaatcaa 
gaaactgaa gcaagtaag aaaagacaa gaagcggac 
aaacagcgg gagagtaac tacaaggct ttcctgcaa 
caagttgaa aacgacgaa gtcaaaaat agtaaatgg 
gcggagttc ccccaaaca gacaataaa cccaaaaag 
aagaaaaat cttaaaatt gtggaagaa aagagcgga 
atcaagcgt aaagctgac gcccccctt gaagaaaat 
agcaaaaaa gtcaagaaa tccgtcgaa agtgataca 
aatgatgtc accacacct gtaaaaaaa ttcaaaaag 
aaaaacgct ccaaatatt ttagcgaaa aaaggcggc 
aagcctaaa gtgaaaaaa acattaaaa aagggacaa 
ttaattgaa gaaaaagag aaatcagcc gaaggtgat 
gtcagttgt gaaactaat gctccaaaa ccttcacaa 
aaaattaat aacaacgaa acagaacct gtgaaaaaa 
ttcaagaaa aaaaacact ccaaacatt ttagcgaaa 
aaaggcggc aaacctaag gcgaaacaa cccgtgaaa 
aaggaacca ctaaccgaa gaagatcgc aagaaaatt 
gagaagaag aaagaaaag cgtttacgt cagcttgaa 
aaaaagaaa ctaaaccaa ccacaagcc gccaatttg 
aagaaagcc aaacctaga gataacgaa aaacacgaa 
cggcgtaaa aaaccccaa aacagcatg ataataaac 
ggaaaagaa gtgccaata gcttacgtc gacggcttc 
cctattaaa aaagaagac gcggagcga atccgccaa 
ttacgccaa caaatgatc agcaaaggt ttacccaga 
agtgaaatt aaagtcgcc ctgaaacta gaacgaaga 
aaagctgaa aaagcattc gctcgagaa aagaagaaa 
gtgtgcttc aattgccga aaatccggt cacaactta 
tccgaatgt ccagaattg ggtaaagaa atagctgag 
tcgtcaggg acgggaatt tgtttcaag tgtgggtca 
actgaacac acgcatttt gagtgtaaa gtagtgagg 
gggcaagaa tttaaattt gcgcagtgt tttatctgc 
cacgagcag gggcatatc gctcgacag tgtcctgat 
aacgcaagg gggttgtat ccgaaggga ggggcttgt 
aaagtatgc ggggacgtg acccacttg aaaaaagat 
tgtccaaag taccagatc caacaacaa cagcttcaa 
gataatctg caaattgaa actatcagc agtagtgat 
aatccagat aatttgagt aaaagtgac gaaaatagc 
agaattgta attaatcga ccgaataaa attattaaa 
ttttacttt tgtttcatt taa
    mRNA sequence
    • >TC005967 RA
      ccacaatta aaataacta aaacacaaa aaacactca 
ccagtttca ctgccaaag aacgatttg ctaaaaatt 
acacgtttg caaattaca attgacgca cccgcttcg 
aaccagaaa tttgaatag taaaataag ttggcaacc 
cgaatttta caaaaaaat ttagttggc aacaggaaa 
aatattttt tgacaatta gtgggtgta cacataacc 
tcaatctgc cacgtgagg ttatttttt cgcctaaaa 
tagaataaa acgtgaaaa tgactcgat ttgcacgtg 
caaagggtt cgaaagcat ccaacgagc gagttcctg 
aagatgcca cgtcctgga gtgagatga aaaatcaat 
tattggaaa aaaatcaag aaactgaag caagtaaga 
aaagacaag aagcggaca aacagcggg agagtaact 
acaaggctt tcctgcaac aagttgaaa acgacgaag 
tcaaaaata gtaaatggg cggagttcc cccaaacag 
acaataaac ccaaaaaga agaaaaatc ttaaaattg 
tggaagaaa agagcggaa tcaagcgta aagctgacg 
ccccccttg aagaaaata gcaaaaaag tcaagaaat 
ccgtcgaaa gtgatacaa atgatgtca ccacacctg 
taaaaaaat tcaaaaaga aaaacgctc caaatattt 
tagcgaaaa aaggcggca agcctaaag tgaaaaaaa 
cattaaaaa agggacaat taattgaag aaaaagaga 
aatcagccg aaggtgatg tcagttgtg aaactaatg 
ctccaaaac cttcacaaa aaattaata acaacgaaa 
cagaacctg tgaaaaaat tcaagaaaa aaaacactc 
caaacattt tagcgaaaa aaggcggca aacctaagg 
cgaaacaac ccgtgaaaa aggaaccac taaccgaag 
aagatcgca agaaaattg agaagaaga aagaaaagc 
gtttacgtc agcttgaaa aaaagaaac taaaccaac 
cacaagccg ccaatttga agaaagcca aacctagag 
ataacgaaa aacacgaac ggcgtaaaa aaccccaaa 
acagcatga taataaacg gaaaagaag tgccaatag 
cttacgtcg acggcttcc ctattaaaa aagaagacg 
cggagcgaa tccgccaat tacgccaac aaatgatca 
gcaaaggtt tacccagaa gtgaaatta aagtcgccc 
tgaaactag aacgaagaa aagctgaaa aagcattcg 
ctcgagaaa agaagaaag tgtgcttca attgccgaa 
aatccggtc acaacttat ccgaatgtc cagaattgg 
gtaaagaaa tagctgagt cgtcaggga cgggaattt 
gtttcaagt gtgggtcaa ctgaacaca cgcattttg 
agtgtaaag tagtgaggg ggcaagaat ttaaatttg 
cgcagtgtt ttatctgcc acgagcagg ggcatatcg 
ctcgacagt gtcctgata acgcaaggg ggttgtatc 
cgaagggag gggcttgta aagtatgcg gggacgtga 
cccacttga aaaaagatt gtccaaagt accagatcc 
aacaacaac agcttcaag ataatctgc aaattgaaa 
ctatcagca gtagtgata atccagata atttgagta 
aaagtgacg aaaatagca gaattgtaa ttaatcgac 
cgaataaaa ttattaaat tttactttt gtttcattt 
aagcctcat ttcccatta aaaaaaaca cagtatctg 
caaatgtaa tgctaagaa aataatatt gtcttcgtt 
ggtaaaaaa attcgtttt gttagagga aaagttcgt 
aaaataata aataaattt cttgctc

    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