Status
Please wait ...
Gene information
General information
TC000396 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: 12015710..12091087
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
    		TC000396
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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 *
    {{ blurIdResult }}
    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03015

    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: 40.0% (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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    larval musculature dorsal partiallyirregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
     larva partially potentiallynot closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    larva segment partially fused - Penetrance (percentage of animals/eggs on slide): less than 30%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    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
    • >TC000396 RA
      MKRRALATQ GKKAPSSWP IYSLVSTVA VACYLNGLN 
GDFVHDDIP AVTLNKDVL AINPISHAF KNDFWGTPM 
ADLASHKSY RPLTILTFR ANFLCFGLQ PVWFHATNV 
VLHATACIL FTRVCLNIA AFKPPFATL AGLLFATHP 
IHTEAVTGI VGRADVLAC VFFLVSLLA YHGHDGKCH 
IWISVALGG LSMLAKETG VSVFLLNLA YDFYRHWPA 
VKKTIVEVR WNQETQQFA NRAAKVLTS LGILLAIRL 
ALLQGSLPK FSQQDNPTA FHPSLYVRV LTFCYLAAF 
NWWLLLCPA TLSHDWQMG SIPLVTSLS DSRNLMTCF 
FFGVAALLV IRSLCDFEN QKHIPVVLG LMLLILPFL 
PAANLVVTV GFVVAERVL YIPSLGCTL LVVYGIQVL 
WTSYSKHRQ TIVCCVMLL LTTNCLRTV VRNRDWRSR 
ESLLRAGLM TLPHNAKMH YNYANFLRD SARPELAKS 
HYHRALKLW PTYASAHNN LGTLLGNEQ EAEQHFLAA 
IRYSADHVN AHYNLGQLY RKLNRTAES EHMLKRCIS 
LEPRFTPAY IELARLRGP NDRSVNNLL KKVALLNPR 
DPYYSTIYG HWLLGKGDN LQALQLYWR ALSVCTSYQ 
EAMFGASKI LRKFGQSSR LFQLITRWQ SILRIRRGE 
PPISPHVYL HGWQLKSEL SHKARAYDN CSTLLLGSR 
CVQSSNKMK KIAPSEELG NKWTRQTSN KTKYHTMKQ 
CKVQQKLHK QKPSTPLMV HHFLD
    CDS sequence
    • >TC000396 RA
      atgaagcga cgagcttta gctacgcaa gggaaaaaa 
gcgcccagt tcgtggccc atatacagc ttagtgagc 
accgttgca gtggcctgc tatcttaac ggacttaat 
ggcgacttc gtgcacgat gatattcct gctgtgact 
ctcaataag gacgtcttg gccatcaac cccatcagt 
catgcattc aagaacgac ttctgggga acgccgatg 
gccgacctc gccagccat aaatcctac agacctctc 
accattctc actttcaga gcgaacttt ttgtgcttc 
ggtctgcag ccagtgtgg tttcacgct acgaacgtc 
gtcctgcat gccacagcc tgcatattg ttcaccagg 
gtgtgcctg aacattgcc gccttcaag cccccgttc 
gccaccctc gccggcctc ttattcgcc acccacccc 
atccacacg gaagcggtg acgggtata gtgggcaga 
gcagacgtt ttggcttgc gtcttcttc ttagtatcg 
ctcctggca tatcacggg catgatggc aagtgtcat 
atctggatc agcgtcgct ttgggaggc ctcagtatg 
ttggcgaaa gagaccggc gtttcggtc tttttgctc 
aatttggcg tacgacttt taccgccat tggcctgcc 
gttaaaaaa acaatagtc gaagtgaga tggaatcag 
gaaacccag caatttgct aatagagct gcgaaggtc 
cttacatcg cttggtata ttacttgcc atcagactg 
gctctttta caaggatcc ttacccaag ttttcgcaa 
caggataat cccacagct ttccatccg tctctctat 
gtgagagtg ttaactttc tgctacttg gcggcgttc 
aactggtgg ctcctgctg tgtcctgcg acgctgtcg 
catgattgg cagatgggg tcgataccc ctagtaacg 
tcactctca gattcgagg aatctgatg acgtgcttc 
ttcttcgga gtggcggca ctgcttgta ataagaagt 
ctctgcgac tttgagaat cagaagcat attccggtg 
gtgcttggc ctcatgttg ctcattttg ccgttcttg 
ccggcagct aatctggtt gttactgta ggatttgta 
gtggctgag agagtcttg tatattcct agcttaggt 
tgtaccctc cttgtagta tatggaatc caagtcttg 
tggacttct tattctaaa catcgccag acgatagtt 
tgctgcgtg atgctgcta ttgaccaca aattgttta 
cgcacggtc gtgcgtaat cgcgactgg cggtcccgc 
gaatccctc ctgagggcc gggctaatg acattaccg 
cacaacgcc aagatgcat tacaactac gcgaatttt 
ctgcgggat tcggcgaga cctgaatta gcaaagtcc 
cattaccac cgggctttg aagctgtgg cccacttat 
gcaagcgcc cacaacaat ttgggcact ttgctgggc 
aacgagcag gaagctgag cagcacttc ttggcggcc 
atccgctac tcggccgac cacgtcaat gcgcactac 
aatctggga cagctctat aggaaattg aatcgcacg 
gctgaatcc gagcacatg ctgaagagg tgcatcagc 
ctcgagccc cgcttcacg ccggcctac atcgaacta 
gcaagactc agaggacca aacgaccga agcgtcaac 
aatctactc aaaaaagtg gctttgctc aacccccga 
gacccctac tacagcacc atttacggc cactggctg 
ctgggaaaa ggcgacaat cttcaggcc ctccaactg 
tactggagg gccctctcc gtgtgcacc tcctaccag 
gaggcgatg ttcggagcc tcgaaaatt ttgcgtaaa 
ttcggtcaa agttcacgc ctctttcaa ctgatcaca 
cgatggcag tcaattttg cggatacgg agaggcgag 
ccccccata agcccacac gtctattta cacggatgg 
caacttaaa agcgaattg agccataaa gccagggcc 
tacgacaat tgtagcacg ttgttactt ggtagtcgt 
tgcgtacaa agttcaaat aaaatgaaa aaaatcgct 
cctagtgaa gaactcgga aataaatgg acgaggcag 
acaagcaac aagacgaag tatcacacg atgaagcag 
tgcaaagtg caacaaaaa ctgcataaa cagaaacct 
tccacgccg ctgatggtt caccatttc ctggattaa
    mRNA sequence
    • >TC000396 RA
      tcgagtcgc tcttcggtg atgacccat aaagagggt 
gagctggtg cagttctca cttccgcca cagcagcgt 
ggcgagcgc ggccatttg ggggtttga gggtagcag 
tcgatagcg cgaatcgtt cgcaggcag tcgtgctgc 
gcctctcct gcggtgagg tcctgacac cacctgatt 
ttccgtgta atgtatgga aacgtgcag acgccatcc 
cgaatacta atcatccga taagatctc gtaattatt 
ccgtatgtt tctagttac gccctgcag aggatcctg 
ccagttcct gcaagttgc gcattgctg gaccggcca 
gtggcttcc aatacactt ccggtacgg tcgagataa 
tcttcttca acaatgaac agtggtaga taaatgggc 
gcataaaac taagcacgg agtgccacg ccgtgatca 
atcgtggcc aaatgttcc attattgtt aaatggtgt 
aagatttat cgttatgcc cgatcccga aaggccact 
tgaattttt taaatagat caaaattta cgctaatcg 
tgagtgaaa gcagaagtt atgttacga ctccgtggt 
cttcataac cggcacgaa taaacattc attctgcgt 
aataaagac agtgacctc gagattacg ccgagatat 
gaagcgacg agctttagc tacgcaagg gaaaaaagc 
gcccagttc gtggcccat atacagctt agtgagcac 
cgttgcagt ggcctgcta tcttaacgg acttaatgg 
cgacttcgt gcacgatga tattcctgc tgtgactct 
caataagga cgtcttggc catcaaccc catcagtca 
tgcattcaa gaacgactt ctggggaac gccgatggc 
cgacctcgc cagccataa atcctacag acctctcac 
cattctcac tttcagagc gaacttttt gtgcttcgg 
tctgcagcc agtgtggtt tcacgctac gaacgtcgt 
cctgcatgc cacagcctg catattgtt caccagggt 
gtgcctgaa cattgccgc cttcaagcc cccgttcgc 
caccctcgc cggcctctt attcgccac ccaccccat 
ccacacgga agcggtgac gggtatagt gggcagagc 
agacgtttt ggcttgcgt cttcttctt agtatcgct 
cctggcata tcacgggca tgatggcaa gtgtcatat 
ctggatcag cgtcgcttt gggaggcct cagtatgtt 
ggcgaaaga gaccggcgt ttcggtctt tttgctcaa 
tttggcgta cgactttta ccgccattg gcctgccgt 
taaaaaaac aatagtcga agtgagatg gaatcagga 
aacccagca atttgctaa tagagctgc gaaggtcct 
tacatcgct tggtatatt acttgccat cagactggc 
tcttttaca aggatcctt acccaagtt ttcgcaaca 
ggataatcc cacagcttt ccatccgtc tctctatgt 
gagagtgtt aactttctg ctacttggc ggcgttcaa 
ctggtggct cctgctgtg tcctgcgac gctgtcgca 
tgattggca gatggggtc gatacccct agtaacgtc 
actctcaga ttcgaggaa tctgatgac gtgcttctt 
cttcggagt ggcggcact gcttgtaat aagaagtct 
ctgcgactt tgagaatca gaagcatat tccggtggt 
gcttggcct catgttgct cattttgcc gttcttgcc 
ggcagctaa tctggttgt tactgtagg atttgtagt 
ggctgagag agtcttgta tattcctag cttaggttg 
taccctcct tgtagtata tggaatcca agtcttgtg 
gacttctta ttctaaaca tcgccagac gatagtttg 
ctgcgtgat gctgctatt gaccacaaa ttgtttacg 
cacggtcgt gcgtaatcg cgactggcg gtcccgcga 
atccctcct gagggccgg gctaatgac attaccgca 
caacgccaa gatgcatta caactacgc gaattttct 
gcgggattc ggcgagacc tgaattagc aaagtccca 
ttaccaccg ggctttgaa gctgtggcc cacttatgc 
aagcgccca caacaattt gggcacttt gctgggcaa 
cgagcagga agctgagca gcacttctt ggcggccat 
ccgctactc ggccgacca cgtcaatgc gcactacaa 
tctgggaca gctctatag gaaattgaa tcgcacggc 
tgaatccga gcacatgct gaagaggtg catcagcct 
cgagccccg cttcacgcc ggcctacat cgaactagc 
aagactcag aggaccaaa cgaccgaag cgtcaacaa 
tctactcaa aaaagtggc tttgctcaa cccccgaga 
cccctacta cagcaccat ttacggcca ctggctgct 
gggaaaagg cgacaatct tcaggccct ccaactgta 
ctggagggc cctctccgt gtgcacctc ctaccagga 
ggcgatgtt cggagcctc gaaaatttt gcgtaaatt 
cggtcaaag ttcacgcct ctttcaact gatcacacg 
atggcagtc aattttgcg gatacggag aggcgagcc 
ccccataag cccacacgt ctatttaca cggatggca 
acttaaaag cgaattgag ccataaagc cagggccta 
cgacaattg tagcacgtt gttacttgg tagtcgttg 
cgtacaaag ttcaaataa aatgaaaaa aatcgctcc 
tagtgaaga actcggaaa taaatggac gaggcagac 
aagcaacaa gacgaagta tcacacgat gaagcagtg 
caaagtgca acaaaaact gcataaaca gaaaccttc 
cacgccgct gatggttca ccatttcct ggattaaat 
aaagtgctt tttcaaaat gttgttttc atattattg 
tgttttgtg attttttgc tctaacttg taacaataa 
tagacatta aaaagtaca aaatttcac tctttcgat 
aaacaaaaa tctaaaatg actgctttg gtaaatatg 
gtgattatg actgatttg taacaaatt attatatat 
tataatttg tttttacct agtatataa taaagtttt 
ttattccca aaaatgcca aactaccta ttcgtgata 
cgtaataga aatctttgc agttttgta atttgttag 
gtatttatt tgtgtttgt tatttgatt tgttcatga 
tgtgaaggg tattaaata acattctaa tattaatat 
tagtgagat taaccgaga gaggaattg atattaata 
taaatcgca aaaattgaa ccatttatt gttataaac 
taggtaggg acgcccaca tggtaataa tttgaatga 
ctgcttgat ttcctagct tagttactc actccttta 
gcagtatta ccgaaacgt ttcttgaat gactgaatt 
tgataaaac aaagatatt tttaataaa ataattttg 
taaagttct taaaaatgg tatgaacga accaagacc 
ggtttacag tgtaaataa atattgcac gaaatgtaa 
ataaaatta acagtatta caaaactct aggtctaag 
tagcttagc aaattcact tttaaagca ttttataaa 
acattgttg aagattaag gttccatat acacatttt 
tttatgata ataaaatga atgtgatcg agtaaaaac 
gttgttctc tccgtatat atagcttga tatttgtga 
aatttttcc gctagtaaa attatggct aaaattatg 
ttcgagaga tttgttttt agatggggc catttcatg 
aactctgta tactgaata ttcatcagg cgaaactat 
ttctcaaag tgaaattaa cgcaaacat acatattta 
taaggttgt tgtgtctac aaattgtaa aatacttgt 
atagttttt tgataatca ataaaatta tttattaac 
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