Status
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Gene information
General information
TC030712 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: 3282608..3285464
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
    		TC030712
    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
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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_02616

    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: 30.0% (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

    beetle stock: bad (increased lethality), adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Pupal morphology
    beetle stock: bad (increased lethality),
    Fertility
    mature egg deposition blocked number 1st lateral oviduct: 2 number 2nd lateral oviduct: - Number of animals showing the phenotype: 3
    ovary without detectable defects - Number of animals showing the phenotype: 1
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature potentially degenerated - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva cuticle thinner - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    ovary without detectable defects - Number of animals showing the phenotype: 3
    fertility after larval injection decreased (no living offspring) -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030712 RA
      MCHKLLIFA LVCLICCEF SDESLQGPT KSKRDEEEK 
SDDSDETSP LRVVPAPDL SKDRDRRKG DTNVNDEIS 
DAVDLFMLD QAKVIQKMV QEIGLKNFM LEEPEELPL 
EDLPPPPEL PAHEPTPEE IEAKTIYDT ATAILNKTR 
PDKKHAYQL LAEAAKKGN PEAKALVAW AKLFGNPLE 
QDLETAKEI FRSLAEGGH PEGHTGLGF LYASGLSVN 
VSQAKALVH YTFGAIGGN TWAQMVLGY KYWSGITVA 
PSCEKALDF YRQVADKVS QGVSFGGGA AIQRIRLLD 
ELENGYSSG ILDNDLIEY YQLLAEKGD IQAQVGLGQ 
LHYQGGRGV DLDYQKAMH YFTQAANAG NAIAMAYLG 
KIYLDGSDE VKADNDTAF KYFKKASDL NNPVGLSGL 
GLMYLYGRG VEKDYTKAY KYFLAAADQ GWVDGQLQL 
GNMYFSGLG VRKDYKLAN KYFSLASQS GHVLAYYNL 
GQMHAQGTG MLRSCPTAV ELFKNVAER GRWGEILMQ 
AHSDYTEGR FNEAFVQYA LLAELGYEV AQSNAAFLL 
DRNEVPMFT IQESLARAL LYWGRAAAQ GYSAAQVKL 
GDYHYYGLG TPVDYETAA SHYRLASEQ QHNAQAMFN 
LGYMHEQGL GMAKDVHLA KRCYDLAAE TSTDAKVPV 
ALALFKLNL MFSLDSLKE SHLSSLLDF NEMFGSNWD 
LYLITTLTA ILAAIVYFR RPQAPAVIH IFL
    CDS sequence
    • >TC030712 RA
      atgtgccac aaattgtta attttcgcg ttggtttgc 
ctcatctgc tgcgaattt tccgacgag agtttgcag 
gggcctacc aagagcaag cgcgacgaa gaggagaag 
tccgatgat tcggacgag acttcgcct cttagggtg 
gtcccggcg cccgacttg tccaaagac cgcgaccgc 
cggaaaggt gacacgaat gttaacgat gaaatttca 
gacgccgtt gatcttttc atgctcgac caagccaaa 
gtcattcaa aagatggtg caagagatc ggcttgaag 
aacttcatg cttgaagaa ccggaagaa ctccccctt 
gaagacctg cccccgccg ccggagctc cccgcccac 
gaaccgacc ccagaggaa atcgaggcg aagacgatt 
tacgacacc gccacggcg attttaaat aaaacccgc 
cccgataaa aaacacgcc taccaactg ttggcagaa 
gctgcgaaa aaggggaat cccgaagcg aaggcactc 
gttgcgtgg gcgaaactc ttcgggaat cccctagag 
caggatttg gaaacggcc aaagagatt ttccggagt 
ttggccgag ggggggcac cctgagggg cacacggga 
cttgggttt ttgtacgcg tcagggttg tcagttaac 
gtgagtcag gccaaagcc ctcgtacat tacacgttt 
ggggcgatt gggggcaac acctgggcg cagatggtc 
ttggggtac aagtactgg tcggggatc actgtggcc 
cccagttgc gagaaagcg ctagatttt taccgacaa 
gtggctgat aaagtgagt caaggggtt tctttcggg 
ggcggagcc gccattcaa agaatccgt cttttggac 
gaattggag aatggatat tcatcgggc attttagat 
aatgatcta attgaatat tatcaactt ttggccgaa 
aaaggagat attcaggcg caagtgggt cttggacag 
ttgcattat caaggcggc cgtggtgtt gatttggat 
taccagaag gccatgcat tattttact caagcagcg 
aatgcggga aatgccatt gctatggcc tacttggga 
aagatttat ttggacggc agtgacgag gtgaaggcc 
gacaacgac accgccttc aaatacttt aaaaaagcc 
tccgatttg aacaatccc gttggctta agtggcctc 
ggtttaatg tatctttac ggccgagga gtggaaaaa 
gactacaca aaagcgtac aaatatttc ctagccgcc 
gctgatcaa ggctgggtc gatggccaa ctccaactc 
ggaaatatg tattttagc ggtttgggc gttcgaaaa 
gactacaaa cttgcaaac aaatatttt tcactcgca 
tcacaatcg ggccatgtc ttggcctac tataacctg 
ggccaaatg cacgctcaa ggcaccgga atgttacga 
tcgtgcccg accgcagtc gaactgttc aagaatgtg 
gcagaaagg gggcgctgg ggcgaaatt ctgatgcaa 
gcgcattcg gattacact gaggggcgt tttaatgag 
gcttttgtg cagtacgcc ctcttggct gagttgggg 
tatgaggtg gctcaaagc aatgctgcg tttttattg 
gacaggaat gaggtgccc atgtttacg attcaggaa 
tctttggca cgggcgttg ctctattgg gggcgcgca 
gctgctcag ggctattca gctgctcaa gtcaaacta 
ggggattat cattattac ggattgggg actccagtc 
gattatgaa actgcggct agtcattat agactggcg 
tccgagcag caacataac gctcaagcc atgtttaat 
ttggggtac atgcacgaa cagggcttg ggaatggcc 
aaggatgtg catttggcc aaaaggtgc tacgatttg 
gctgctgag acaagtact gatgctaag gttccggtg 
gctttggcg ctttttaaa ctgaatttg atgttcagt 
ttggatagt ttgaaagag agccaccta tcgagtttg 
ttggacttt aacgagatg tttgggtcg aattgggat 
ttgtatttg attaccacg ctcacggct attcttgca 
gcgattgtt tatttccgg agaccgcaa gcgcccgct 
gttatacac attttttta taa
    mRNA sequence
    • >TC030712 RA
      tcatcaaca aacttgtca taaaaatgt gtaaacact 
taaaacttg gataaataa ttaaattag gactgactt 
tggggtgtt gtgacctta aaaactcgc tcatttgtg 
tcaatagtg cgtcctagt cgtttaaaa aaagtaaaa 
tgttgacct aaccccaaa aaccaaaat gtaaaatca 
atctctgtg acgtttttg ggacacgta tctgataaa 
caagtggaa ataaatcaa aagtgataa ccatgtgcc 
acaaattgt taattttcg cgttggttt gcctcatct 
gctgcgaat tttccgacg agagtttgc aggggccta 
ccaagagca agcgcgacg aagaggaga agtccgatg 
attcggacg agacttcgc ctcttaggg tggtcccgg 
cgcccgact tgtccaaag accgcgacc gccggaaag 
gtgacacga atgttaacg atgaaattt cagacgccg 
ttgatcttt tcatgctcg accaagcca aagtcattc 
aaaagatgg tgcaagaga tcggcttga agaacttca 
tgcttgaag aaccggaag aactccccc ttgaagacc 
tgcccccgc cgccggagc tccccgccc acgaaccga 
ccccagagg aaatcgagg cgaagacga tttacgaca 
ccgccacgg cgattttaa ataaaaccc gccccgata 
aaaaacacg cctaccaac tgttggcag aagctgcga 
aaaagggga atcccgaag cgaaggcac tcgttgcgt 
gggcgaaac tcttcggga atcccctag agcaggatt 
tggaaacgg ccaaagaga ttttccgga gtttggccg 
agggggggc accctgagg ggcacacgg gacttgggt 
ttttgtacg cgtcagggt tgtcagtta acgtgagtc 
aggccaaag ccctcgtac attacacgt ttggggcga 
ttgggggca acacctggg cgcagatgg tcttggggt 
acaagtact ggtcgggga tcactgtgg cccccagtt 
gcgagaaag cgctagatt tttaccgac aagtggctg 
ataaagtga gtcaagggg tttctttcg ggggcggag 
ccgccattc aaagaatcc gtcttttgg acgaattgg 
agaatggat attcatcgg gcattttag ataatgatc 
taattgaat attatcaac ttttggccg aaaaaggag 
atattcagg cgcaagtgg gtcttggac agttgcatt 
atcaaggcg gccgtggtg ttgatttgg attaccaga 
aggccatgc attatttta ctcaagcag cgaatgcgg 
gaaatgcca ttgctatgg cctacttgg gaaagattt 
atttggacg gcagtgacg aggtgaagg ccgacaacg 
acaccgcct tcaaatact ttaaaaaag cctccgatt 
tgaacaatc ccgttggct taagtggcc tcggtttaa 
tgtatcttt acggccgag gagtggaaa aagactaca 
caaaagcgt acaaatatt tcctagccg ccgctgatc 
aaggctggg tcgatggcc aactccaac tcggaaata 
tgtatttta gcggtttgg gcgttcgaa aagactaca 
aacttgcaa acaaatatt tttcactcg catcacaat 
cgggccatg tcttggcct actataacc tgggccaaa 
tgcacgctc aaggcaccg gaatgttac gatcgtgcc 
cgaccgcag tcgaactgt tcaagaatg tggcagaaa 
gggggcgct ggggcgaaa ttctgatgc aagcgcatt 
cggattaca ctgaggggc gttttaatg aggcttttg 
tgcagtacg ccctcttgg ctgagttgg ggtatgagg 
tggctcaaa gcaatgctg cgtttttat tggacagga 
atgaggtgc ccatgttta cgattcagg aatctttgg 
cacgggcgt tgctctatt gggggcgcg cagctgctc 
agggctatt cagctgctc aagtcaaac taggggatt 
atcattatt acggattgg ggactccag tcgattatg 
aaactgcgg ctagtcatt atagactgg cgtccgagc 
agcaacata acgctcaag ccatgttta atttggggt 
acatgcacg aacagggct tgggaatgg ccaaggatg 
tgcatttgg ccaaaaggt gctacgatt tggctgctg 
agacaagta ctgatgcta aggttccgg tggctttgg 
cgcttttta aactgaatt tgatgttca gtttggata 
gtttgaaag agagccacc tatcgagtt tgttggact 
ttaacgaga tgtttgggt cgaattggg atttgtatt 
tgattacca cgctcacgg ctattcttg cagcgattg 
tttatttcc ggagaccgc aagcgcccg ctgttatac 
acatttttt tataaattg tacggtttt agttgaaaa 
ataaatgtt acataaaag a

    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