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Gene information
General information
TC030649 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_007422.5: 9972708..9975808
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
    		TC030649
    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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    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_02609

    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
    • >TC030649 RA
      MSSEKESVS SPMSIEKYS LVLVDVAGT TTSIDFVKD 
TLFPFVVKQ AEPFLQEKW EEESIKDCI KLIKGDADL 
DLAAAVERV KALTQEDSS NKGLKTLQG LIYKDGYEK 
GELKAHVFD DVPEAFETW AKNRRVAIY STGSVDSQK 
LLFSNTVKG DLSAHISKY FDQSVGPKT EAESYKKIA 
TETEAKPEE IVFITDDPK EATAAKSGG LAAVLIIRE 
GNSPLPEEI SKEFTTISS FKDFDKTLK RKIEEAPTS 
EEAPPSKLP KTDVEEKPT EEKAESMEV DAGKPEATE 
TAQNETEQP TEKTENKEE TKEVTESEE KMETVVEET 
KAEVATEEV NATTEQEKP TETEEPKEV EAAKTEEPK 
ADDAKPEDP KPEEEKPTE EAQVPEEKP AEEAPEKTE 
TEEVKVDTT DAPVENGEE KTEAAEKTE EKENKSVLA 
NGVENGKEE SETVTDAAE SAEVKVDEV EKSDEAEVK 
VKKLEESAE NITSKRMYC RVIVSFLVC TIWEISIFK 
CQNFYWT
    CDS sequence
    • >TC030649 RA
      atgagttct gaaaaagaa agtgtttct tctccgatg 
agcatcgaa aagtactct cttgtgctt gtggacgtt 
gccggcaca acgacttcc atcgacttt gtaaaggac 
actctcttt ccttttgtc gtcaaacaa gctgaaccc 
tttcttcaa gaaaaatgg gaagaagaa tctattaag 
gattgcatc aaattaatc aaaggagat gccgatttg 
gatcttgca gccgcagtg gaacgtgtc aaagccttg 
acccaagaa gatagctcc aataaaggt ctgaagacg 
ctccaaggg ctgatctac aaagatggt tacgaaaag 
ggcgaactc aaagcacac gtttttgat gatgttcct 
gaagctttt gaaacttgg gccaaaaat cgccgcgtt 
gctatctat tccactgga agcgttgat tcacaaaag 
ttgcttttt agtaacacg gttaaaggc gatctttct 
gcacacatt tccaaatat ttcgaccaa tctgtggga 
cctaagact gaagctgaa agttacaag aagatagcg 
acagaaact gaagccaaa ccagaagaa atcgtcttt 
attactgac gaccctaaa gaagcaaca gctgctaaa 
tctggagga cttgcggct gtcctaatt atcagagaa 
ggcaattct cctttacct gaagagatc tcaaaagaa 
tttacaact attagttcc tttaaagac tttgataaa 
actctcaaa cgaaaaatt gaagaggca cccacttca 
gaggaggcg ccaccttca aaactccct aaaaccgac 
gtggaagaa aaacccact gaagagaaa gcagagtca 
atggaagtt gatgctggt aagcctgaa gccactgaa 
actgcccaa aacgagact gaacaacca acggaaaag 
actgaaaat aaagaagaa accaaggaa gtcactgaa 
tctgaggaa aaaatggaa acagttgtt gaagaaaca 
aaagcagaa gtagcaact gaagaggtt aacgcaaca 
acggagcaa gaaaaacca acagaaact gaagaacca 
aaagaggtg gaggcagca aaaactgaa gaaccaaaa 
gcagacgat gcaaaacct gaagatcct aaacccgaa 
gaagagaaa cctacagaa gaggcacaa gtgcctgag 
gaaaaaccc gctgaagaa gcccccgaa aagactgaa 
acggaagag gttaaggta gacacaacc gacgcgcct 
gtggagaac ggtgaagaa aaaaccgaa gctgcggag 
aaaactgag gaaaaagaa aataagagt gtgctagcc 
aacggtgtt gagaacgga aaggaagag agtgaaact 
gtcacagat gcggctgag agcgctgaa gtcaaagtc 
gatgaggtt gaaaagagc gatgaagcc gaggtcaaa 
gtgaaaaaa ctagaggaa agtgctgaa aatatcaca 
tctaaacga atgtattgt cgagtaatc gtaagtttc 
ttggtttgt accatttgg gaaatttca attttcaag 
tgccaaaat ttttattgg acttaa
    mRNA sequence
    • >TC030649 RA
      agtttatgt cgtaacaac tttcttttg atattttgt 
agtgcgcaa gcgtaaacg atgcaaaat tcaccattt 
tctccacct ccaccattc gtgttttgc atcgtccgt 
tgttgccgt taatcacga aatttttta aactaaaaa 
ccacaaatt ctgtgaaaa aacgttacc actaatcga 
aacccatta ccgtaattg aatttaaga tgagttctg 
aaaaagaaa gtgtttctt ctccgatga gcatcgaaa 
agtactctc ttgtgcttg tggacgttg ccggcacaa 
cgacttcca tcgactttg taaaggaca ctctctttc 
cttttgtcg tcaaacaag ctgaaccct ttcttcaag 
aaaaatggg aagaagaat ctattaagg attgcatca 
aattaatca aaggagatg ccgatttgg atcttgcag 
ccgcagtgg aacgtgtca aagccttga cccaagaag 
atagctcca ataaaggtc tgaagacgc tccaagggc 
tgatctaca aagatggtt acgaaaagg gcgaactca 
aagcacacg tttttgatg atgttcctg aagcttttg 
aaacttggg ccaaaaatc gccgcgttg ctatctatt 
ccactggaa gcgttgatt cacaaaagt tgcttttta 
gtaacacgg ttaaaggcg atctttctg cacacattt 
ccaaatatt tcgaccaat ctgtgggac ctaagactg 
aagctgaaa gttacaaga agatagcga cagaaactg 
aagccaaac cagaagaaa tcgtcttta ttactgacg 
accctaaag aagcaacag ctgctaaat ctggaggac 
ttgcggctg tcctaatta tcagagaag gcaattctc 
ctttacctg aagagatct caaaagaat ttacaacta 
ttagttcct ttaaagact ttgataaaa ctctcaaac 
gaaaaattg aagaggcac ccacttcag aggaggcgc 
caccttcaa aactcccta aaaccgacg tggaagaaa 
aacccactg aagagaaag cagagtcaa tggaagttg 
atgctggta agcctgaag ccactgaaa ctgcccaaa 
acgagactg aacaaccaa cggaaaaga ctgaaaata 
aagaagaaa ccaaggaag tcactgaat ctgaggaaa 
aaatggaaa cagttgttg aagaaacaa aagcagaag 
tagcaactg aagaggtta acgcaacaa cggagcaag 
aaaaaccaa cagaaactg aagaaccaa aagaggtgg 
aggcagcaa aaactgaag aaccaaaag cagacgatg 
caaaacctg aagatccta aacccgaag aagagaaac 
ctacagaag aggcacaag tgcctgagg aaaaacccg 
ctgaagaag cccccgaaa agactgaaa cggaagagg 
ttaaggtag acacaaccg acgcgcctg tggagaacg 
gtgaagaaa aaaccgaag ctgcggaga aaactgagg 
aaaaagaaa ataagagtg tgctagcca acggtgttg 
agaacggaa aggaagaga gtgaaactg tcacagatg 
cggctgaga gcgctgaag tcaaagtcg atgaggttg 
aaaagagcg atgaagccg aggtcaaag tgaaaaaac 
tagaggaaa gtgctgaaa atatcacat ctaaacgaa 
tgtattgtc gagtaatcg taagtttct tggtttgta 
ccatttggg aaatttcaa ttttcaagt gccaaaatt 
tttattgga cttaagact ggacccaaa gactgtttt 
taatctcac ttttgtgat actcatttt ttaagacta 
ctgaacagt attaaattt gtgtcactc attgtttag 
gtgttttgt ccttatttt agctatgta actcgcttt 
cttaatcac attcctaat gagtatact ggtacggtt 
atttttgat attaacgca tttacttaa tttagtttt 
gtaaaataa ctggcttcc agtgtgttc cacttttgt 
tccattttt atggctcat gagattgtg atattaaaa 
aaaattgaa aaat

    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