Status
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Gene information
General information
TC030733 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_007417.3: 14912223..14914942
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
    		TC030733
    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 *
    {{ blurReferenceResult }}
    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
    If you have entered your name and agree by marking the checkbox. we might show your name on this page to honor your contribution.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_06057

    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: 20.0% (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: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - 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): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%
    cuticle remnants with unidentifyable segments - 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): more than 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: -1.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: -1.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC030733 RA
      MSLSGNLGS PSKDTISSS GSLVGSENL PRDFSRLSL 
FSSGSATSQ DEQFRSEGH AEHSLSCMQ NYLQAGKLC 
DVTLVAGNN GKKVQAHRL VLSAASEYF AAMFTGNLR 
ESGESEITL GDVNGDVLQ AVVNYCYTG AIDIREDNV 
ETLLSTACL MQLHEVVEA CSRFLAHQL HPSNCLGIA 
VFAEHQACT SLLQEANAY TSQNFMQVI RNQEFLQLS 
AEQMINLLS NDDLNVTSE EHIFHALMS WINHDPVTR 
KQMIGLLLA FVKLPLLSP EFLTDQVEP AVGSDPVCQ 
TLIMEAFKW HLLPDRHFQ MASARTRPR KATLGRLLV 
VGGMDKNKG ATTIESYDP RSDRWAVAH HMSGRRLQF 
GIALLGDKL LVVGGRDGL KTLNTMECL DMETGSWTQ 
LSPMNTHRH GLGVAVLGG TLYAVGGHD GWSYLNNVE 
RWDPVTRSW SYVTPMQSQ RCSAGVAVL KDKLYAVGG 
RDGASCLRT VECYDPHTN KWTMCAPLA RRRGGVGVA 
VANGYLYAL GGQDAPANN PAASRFDCV ERYDPSTDS 
WIVIASLSS KRDAVAACL FGDRLVAVG GYDGSHYLR 
TVEQYDPYT NEWTALAPL ITGRAGACV IAVSNAHVQ 
SGD
    CDS sequence
    • >TC030733 RA
      atgtcattg tctggaaat ttggggagt ccttccaaa 
gatacaatc tcaagcagc ggaagtctc gtcggaagc 
gaaaactta ccgagggac tttagtagg ttgtctctg 
ttctcgtcc ggttctgcg acttctcag gatgagcag 
ttcaggagt gaggggcac gctgaacat agtctctcc 
tgcatgcag aattactta caagctggg aaattgtgc 
gatgtgacg cttgtggcc ggcaataat gggaaaaag 
gtgcaagcg cacagactc gttctttcc gctgctagt 
gaatatttt gctgcgatg tttactggc aatttacgc 
gaatcgggc gaatccgaa atcacactg ggtgatgtt 
aacggcgat gttttgcaa gctgttgtg aattactgt 
tatacgggg gcgattgat ataagggaa gacaatgta 
gagacactt ctatcaacg gcatgtctc atgcaatta 
cacgaagtt gtggaagct tgttcacgc tttctggcc 
caccaactg caccccagc aattgcctg ggaattgca 
gttttcgcc gaacatcag gcttgcact agtttgttg 
caagaagcc aatgcttac acaagtcag aactttatg 
caagtgata cgaaaccaa gaatttctc cagttaagt 
gcggagcaa atgattaat ttgttatca aatgatgat 
ttaaatgtc acgtcagag gagcacatt ttccacgct 
ttgatgagt tggatcaac catgatcca gtcacccgg 
aaacaaatg attggctta ctactggct tttgttaag 
ttgccgcta ctttcgccc gaatttctg acagatcaa 
gtggaacca gctgttggt tctgacccc gtctgtcag 
acactaatc atggaggcg ttcaaatgg cacttgtta 
ccagacagg cattttcaa atggctagt gctagaact 
agaccacgt aaggcaaca cttggtagg ttactagtc 
gtaggcggc atggataaa aacaaaggc gcaacgacg 
atagaaagc tacgatccg aggagtgat cggtgggcg 
gtggcacac cacatgagt gggcggaga ctacaattc 
gggatcgca ctattgggc gataagtta ttagtcgtg 
ggtggccgt gatggtctc aaaacgcta aacacaatg 
gaatgtttg gatatggag actgggtct tggacccag 
ttatcacca atgaacacc catcgacat gggctgggc 
gtggccgtt ttgggcggg actttatac gcggtgggc 
gggcacgac gggtggagt tatctcaat aatgttgaa 
cggtgggac cctgttaca cgttcttgg agttatgtg 
acccccatg caaagtcag cgttgctcg gctggggtt 
gccgtctta aaagacaaa ctttatgca gttgggggt 
cgtgatggg gcttcgtgt ttgcgtacg gtggaatgt 
tacgacccc catacgaac aaatggacg atgtgtgcc 
cccttggcc aggcggcgt gggggtgtg ggggtagct 
gtggccaat ggctacttg tatgcttta ggggggcaa 
gatgccccg gctaataat ccagccgcg agtagattt 
gattgtgtt gagagatac gatcccagc actgatagt 
tggattgtg attgcttca ctgtcgagt aaacgcgat 
gccgtggca gcttgttta tttggtgac agacttgta 
gctgttggg ggatatgat ggcagtcac tatttgaga 
acagtggag cagtatgat ccctacact aatgagtgg 
actgccctt gcaccttta attacaggt agggcaggt 
gcttgcgta attgccgtc tcaaatgct cacgttcaa 
tcaggtgac taa
    mRNA sequence
    • >TC030733 RA
      gctaatgac tattgttgt caaattaag attttcctg 
ctagttgat acatgttta gcggtttac atttaactt 
ttttgattc ccctccttg tgtgtaatt aacgtcaag 
acgaagttt agtgatgtc attgtctgg aaatttggg 
gagtccttc caaagatac aatctcaag cagcggaag 
tctcgtcgg aagcgaaaa cttaccgag ggactttag 
taggttgtc tctgttctc gtccggttc tgcgacttc 
tcaggatga gcagttcag gagtgaggg gcacgctga 
acatagtct ctcctgcat gcagaatta cttacaagc 
tgggaaatt gtgcgatgt gacgcttgt ggccggcaa 
taatgggaa aaaggtgca agcgcacag actcgttct 
ttccgctgc tagtgaata ttttgctgc gatgtttac 
tggcaattt acgcgaatc gggcgaatc cgaaatcac 
actgggtga tgttaacgg cgatgtttt gcaagctgt 
tgtgaatta ctgttatac gggggcgat tgatataag 
ggaagacaa tgtagagac acttctatc aacggcatg 
tctcatgca attacacga agttgtgga agcttgttc 
acgctttct ggcccacca actgcaccc cagcaattg 
cctgggaat tgcagtttt cgccgaaca tcaggcttg 
cactagttt gttgcaaga agccaatgc ttacacaag 
tcagaactt tatgcaagt gatacgaaa ccaagaatt 
tctccagtt aagtgcgga gcaaatgat taatttgtt 
atcaaatga tgatttaaa tgtcacgtc agaggagca 
cattttcca cgctttgat gagttggat caaccatga 
tccagtcac ccggaaaca aatgattgg cttactact 
ggcttttgt taagttgcc gctactttc gcccgaatt 
tctgacaga tcaagtgga accagctgt tggttctga 
ccccgtctg tcagacact aatcatgga ggcgttcaa 
atggcactt gttaccaga caggcattt tcaaatggc 
tagtgctag aactagacc acgtaaggc aacacttgg 
taggttact agtcgtagg cggcatgga taaaaacaa 
aggcgcaac gacgataga aagctacga tccgaggag 
tgatcggtg ggcggtggc acaccacat gagtgggcg 
gagactaca attcgggat cgcactatt gggcgataa 
gttattagt cgtgggtgg ccgtgatgg tctcaaaac 
gctaaacac aatggaatg tttggatat ggagactgg 
gtcttggac ccagttatc accaatgaa cacccatcg 
acatgggct gggcgtggc cgttttggg cgggacttt 
atacgcggt gggcgggca cgacgggtg gagttatct 
caataatgt tgaacggtg ggaccctgt tacacgttc 
ttggagtta tgtgacccc catgcaaag tcagcgttg 
ctcggctgg ggttgccgt cttaaaaga caaacttta 
tgcagttgg gggtcgtga tggggcttc gtgtttgcg 
tacggtgga atgttacga cccccatac gaacaaatg 
gacgatgtg tgccccctt ggccaggcg gcgtggggg 
tgtgggggt agctgtggc caatggcta cttgtatgc 
tttaggggg gcaagatgc cccggctaa taatccagc 
cgcgagtag atttgattg tgttgagag atacgatcc 
cagcactga tagttggat tgtgattgc ttcactgtc 
gagtaaacg cgatgccgt ggcagcttg tttatttgg 
tgacagact tgtagctgt tgggggata tgatggcag 
tcactattt gagaacagt ggagcagta tgatcccta 
cactaatga gtggactgc ccttgcacc tttaattac 
aggtagggc aggtgcttg cgtaattgc cgtctcaaa 
tgctcacgt tcaatcagg tgactaaat agtcccgat 
taactcttt gaatatttg catttactc gtataaaca 
ttcctaatt cgtattacg aaatctgca agataaaat 
gttcgtact ttttctatt tcacgtgtg gattattca 
atgtagagt agagtagtg tcacttttt atgcaatat 
ttttacttt tatacatag ataagactt cagtattat 
tgcaataat tttttcgga ttaatgaat gtctcattt 
ctggtgttc ctttgtcac acaaagact gaaccgaac 
tgaatttat ttttactat ccttccagc agtgttcac 
attttggtg taaatatcg tgtgattga taaaattct 
gcatcctag tgccaataa ttcactagg atgtgagac 
tttgtaatc tcgttgttg tattcaccc atttttgca 
ttttgtgat ggtagtttt ctgcaagga aaaattgtg 
ctttcccaa tttaaagtt gtgtcctgt gataaaatt 
aagaccttg cagaaatat cttgtgaga aattgtgat 
aattataac attttgcaa ataaataaa ctttctcaa 
t

    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