Status
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Gene information
General information
TC001775 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_007416.3: 7722261..7732726
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
    		TC001775
    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
    {{ blurEvidenceResult }}
    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_00304

    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: 0.0% (includes death as pupa, adult)

    Adult morphology
    prothoracic odoriferous glands potentially not present - Number of animals showing the phenotype: 5 (13 dpi)
    Days post injection


    abdominal odoriferous glands not present - Number of animals showing the phenotype: 10 (13 dpi)
    Days post injection


    abdominal odoriferous glands content not present - Number of animals showing the phenotype: 10 (13 dpi)
    Days post injection


    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg not developed/not fertilized - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    embryo/egg with embryonic tissue, no cuticle, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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): 30% - 50%
    cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - 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: % (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: % (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001775 RA
      MFIPDTLRS CMVEPDVSS YLQTPSSGQ DEFHPFIEA 
LLPFVKSFS YTWFNLQAA KRKYYKKHE KRMSLEEER 
QCKEALQNE KAEVKQKWA SRLLGKLRK DITQECRED 
FVLSITGKR PAVCVLSNP DQKGKMRRI DCLRQADKV 
WRLDLVMVI LFKAIPLES TDGERLEKN PDCSQPGLC 
VNPYHINVS VRELDLYLA NFINSHEIL SGVCYNNNN 
KKEDDRKNK VTGYTHNPY NGVICNDII LATGVFSSK 
ELWKLSKSS ILHELSDPQ PTMNSVKLE HPAYYCNNY 
SEQGPVVSD RTSSVDAMV VSAAYSIPQ NTTLVSSSS 
QPNPSTIFY QHSPEPHQH QHQNQVKYP ENGHDTLSD 
FVTFVCQET DSSNQNAQM QTNMSRSPK TQYFPSTML 
PPPPLPPMA RPVAIIRST GDVTLSGTN SPPASITPP 
CSEASPADD VPEISSSPP LSPGSHERR KSPSQRNSV 
PTSSPYSPT RDYSFNHFH GQPGHLFSY PSMSGMSGV 
ISPTNLSMY SASVSTSRG TRSSSIPRW SAPLFTLDQ 
EDFNMIAHQ TNPESNAII LMDDGTASS DHGQCCSSA 
NLMCDTDRF FQAGDALES AGQRDAELP APKSP
    CDS sequence
    • >TC001775 RA
      atgttcatc cccgacacg ttgcgcagc tgcatggtg 
gagcccgat gtgtcctcg tatctccag acgccgtcc 
tcgggacag gacgagttc cacccattc atcgaggca 
ctcctgcct tttgtcaag tccttctca tacacgtgg 
tttaatctc caagccgcc aaaaggaag tactacaaa 
aaacacgag aaacggatg tctttggag gaggagcgg 
cagtgcaaa gaagcttta cagaacgag aaagccgaa 
gtcaagcag aaatgggcc tcccgtctg ttgggcaag 
ctccggaag gacattacg caggaatgt cgcgaggac 
ttcgtgctg agcatcacg gggaagcga cccgcagtc 
tgcgtgctc tcaaatccc gatcagaaa ggcaaaatg 
cgccgaata gactgtctc cgccaagca gataaagtt 
tggcgcttg gatctcgtt atggtgata ctttttaaa 
gcaatacct ctcgaaagt acggatggc gaaaggctc 
gagaaaaat ccggactgt tctcaacct ggactttgt 
gtaaatcca tatcatatt aatgtgtca gtgcgagaa 
ctggatctt tatctagcc aacttcatc aacagccac 
gaaatacta agcggagtc tgttacaat aacaacaac 
aagaaagag gacgacagg aaaaacaaa gttacaggt 
tacacccac aatccgtac aacggtgta atatgtaat 
gacattata ttagctaca ggagtattt tcatcaaag 
gaattatgg aagttgtcc aaatcttct atcttgcac 
gaactttcg gatccgcaa ccaacgatg aacagtgtc 
aaattagaa cacccggcc tattattgc aacaattat 
tcagagcag gggcctgtt gtcagtgac cggacgtct 
tcagtcgac gccatggtc gtctcagcg gcctactct 
atacctcaa aacaccact ctagtgtct tccagttct 
caacctaat ccaagtaca atattctat cagcacagt 
ccggagcca caccaacac cagcaccaa aaccaggtg 
aaatatcca gaaaacgga cacgacacc ctctccgac 
tttgtcact ttcgtgtgt caagagacg gacagcagc 
aaccaaaac gcacaaatg caaacgaac atgtctcga 
agtccgaaa acgcagtat tttccgtcg acgatgttg 
ccgccgccg cccctgccc ccgatggcc cgtccggtg 
gcgataatc cgttcaact ggcgacgtg acgctaagc 
gggacaaac tcgccccct gcgagcata acccctcca 
tgcagcgag gcgtctccc gccgacgac gtccccgag 
atatcgtcg tcgccgccg ctgagtcca ggcagccac 
gagcggcgc aaaagcccc tcgcagagg aactccgtg 
ccgaccagc agtccgtac tcgccgacg cgggactac 
tccttcaac cactttcac gggcagccg ggacatctc 
ttcagctac cccagtatg agcgggatg tctggagtt 
atcagccct acgaacctc agcatgtac tcggccagc 
gtgagtacg tccagaggt acgcgttct agcagcatc 
ccgcgctgg agcgccccg ctgttcacc ctggaccag 
gaggacttc aacatgatt gcgcaccag acgaacccg 
gagtccaac gccatcatc ctgatggac gacggcacg 
gccagttcc gaccacgga cagtgctgc agcagtgcg 
aatcttatg tgcgatacg gaccgattc tttcaagcg 
ggcgatgcc ttagagagc gcgggccag agggacgca 
gaactgccc gcaccgaag tccccgtga
    mRNA sequence
    • >TC001775 RA
      gatggcagc accagtcga tcgcgagtg cctcttcga 
gcagtagtg cgaagcaga aagcagcag atgaggaaa 
aggatgaag cggcagcgc ccggacgca agtcgacgt 
catcggcgt cgtagcaat atataaata tatacggcg 
ctggcgacg tcccgcgtc ttttattaa tagagcgcg 
agaggcgag cgcggggtc ctgcagcgg acatttgct 
aggtgttgg gtacgtgca acgtgcgga cggctgatg 
tagacgttc gcggagctc gaggtggca tgtgtggga 
ctagtgatg agtgagttg gaatcgtcg ccaagcaca 
agaagaggc cgaggacga gcaagagca agagcaaga 
gcagaggct gcggacggt gcccgcgtc cgcgtccgc 
agtgcgcat taggcaatc aatgaggag gaggctgct 
ggtagcact agttctctt ctggtgatg ggacccgga 
ccggtgcgc gccgcccgc cggtgacgg tgacgtgac 
ctgaggaat gttcatccc cgacacgtt gcgcagctg 
catggtgga gcccgatgt gtcctcgta tctccagac 
gccgtcctc gggacagga cgagttcca cccattcat 
cgaggcact cctgccttt tgtcaagtc cttctcata 
cacgtggtt taatctcca agccgccaa aaggaagta 
ctacaaaaa acacgagaa acggatgtc tttggagga 
ggagcggca gtgcaaaga agctttaca gaacgagaa 
agccgaagt caagcagaa atgggcctc ccgtctgtt 
gggcaagct ccggaagga cattacgca ggaatgtcg 
cgaggactt cgtgctgag catcacggg gaagcgacc 
cgcagtctg cgtgctctc aaatcccga tcagaaagg 
caaaatgcg ccgaataga ctgtctccg ccaagcaga 
taaagtttg gcgcttgga tctcgttat ggtgatact 
ttttaaagc aatacctct cgaaagtac ggatggcga 
aaggctcga gaaaaatcc ggactgttc tcaacctgg 
actttgtgt aaatccata tcatattaa tgtgtcagt 
gcgagaact ggatcttta tctagccaa cttcatcaa 
cagccacga aatactaag cggagtctg ttacaataa 
caacaacaa gaaagagga cgacaggaa aaacaaagt 
tacaggtta cacccacaa tccgtacaa cggtgtaat 
atgtaatga cattatatt agctacagg agtattttc 
atcaaagga attatggaa gttgtccaa atcttctat 
cttgcacga actttcgga tccgcaacc aacgatgaa 
cagtgtcaa attagaaca cccggccta ttattgcaa 
caattattc agagcaggg gcctgttgt cagtgaccg 
gacgtcttc agtcgacgc catggtcgt ctcagcggc 
ctactctat acctcaaaa caccactct agtgtcttc 
cagttctca acctaatcc aagtacaat attctatca 
gcacagtcc ggagccaca ccaacacca gcaccaaaa 
ccaggtgaa atatccaga aaacggaca cgacaccct 
ctccgactt tgtcacttt cgtgtgtca agagacgga 
cagcagcaa ccaaaacgc acaaatgca aacgaacat 
gtctcgaag tccgaaaac gcagtattt tccgtcgac 
gatgttgcc gccgccgcc cctgccccc gatggcccg 
tccggtggc gataatccg ttcaactgg cgacgtgac 
gctaagcgg gacaaactc gccccctgc gagcataac 
ccctccatg cagcgaggc gtctcccgc cgacgacgt 
ccccgagat atcgtcgtc gccgccgct gagtccagg 
cagccacga gcggcgcaa aagcccctc gcagaggaa 
ctccgtgcc gaccagcag tccgtactc gccgacgcg 
ggactactc cttcaacca ctttcacgg gcagccggg 
acatctctt cagctaccc cagtatgag cgggatgtc 
tggagttat cagccctac gaacctcag catgtactc 
ggccagcgt gagtacgtc cagaggtac gcgttctag 
cagcatccc gcgctggag cgccccgct gttcaccct 
ggaccagga ggacttcaa catgattgc gcaccagac 
gaacccgga gtccaacgc catcatcct gatggacga 
cggcacggc cagttccga ccacggaca gtgctgcag 
cagtgcgaa tcttatgtg cgatacgga ccgattctt 
tcaagcggg cgatgcctt agagagcgc gggccagag 
ggacgcaga actgcccgc accgaagtc cccgtgagc 
atcgacgac gacgacgac gacgacaaa ctgccttat 
cgctttctt gccaattta tgtgtgatt attatgttg 
gattttgat catttcacg cgactcggt gcgctatag 
gctgctcaa ctagcgtag attaggtta ctgtataca 
tacttatag tatagaccg gtgccaaga caggctgtg 
gcgatccag aaggacccg gcacgtcgg aaagacact 
attcgacct gctcggccc aacggcctg aacacgttg 
gtgacgtta gtttcaatt ccgttccta tgcggggac 
acaccccac catcgcccc ttccacacc actcgccaa 
aaccggtta aaccggctt ctgcaaatt caccacctt 
tcctactcg taacttggg aacttaaca aagatatac 
ccggttagg aattttttg atataaatc tgagctttg 
ttagcggtt ctaaatgag ttacgaatt ttgggccac 
cacaaacga taatttatc gttgtcaat taaatgttc 
agaattgtt accgtaatc gcgaacaaa ttattctac 
atgtagtat caaatccca caatttttc attttaaaa 
agcaagtgg aaatcttct tagttgccg agttcccaa 
tattgtcac ttaaaccgg tttaaacgg ctgcaacaa 
aacttgaaa aaaacaaaa tacgtagtt acacagcaa 
gtcgctcgt tgcgaaata ttgcaacga aattgggtg 
agtaataaa tatattata agatataac gtatttcta 
tgtgccaca gcgtgcgac atctctatt gcccttcca 
atgaatcgt ggtttctaa ttagaattt tataatgtc 
ttgaaattt tacgaaata ttctgaggt aattgggaa 
aatatgagg gaattgcac gaaatctcg aaaaaatct 
ggtttacaa catacatag tacctatgg aaataaaat 
tattgaaat tttacacac ttgactgtg caatgataa 
caatcacta tcaattttt atattttat tttgtaatt 
aaataaagt cgtagcagt ctcgtgagt tttcgggga 
ctaactgtt aatttaact aagttttta cactaagtg 
aatttattt taaattttt tacttgagc ggttacata 
atcactata caacaaatt ttaactttt ttttgttta 
tgggatttt ttacaatct tcaatttaa aatcattag 
ttaagtgga taaaataaa ttttatact actct

    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