Status
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Gene information
General information
TC003390 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_007418.3: 4034546..4044090
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
    		TC003390
    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_07953

    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: 3 (3 dpi)
    Days post injection

    Fertility
    eggs lost during procedure: potentially due to defects in egg-shells egg-morphology or egg-size, (13 dpi)
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    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: < 20
     low validity due to technical reasons - should be repeated: cuticle phenotype not scorable,
    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
    • >TC003390 RA
      MFAQGFTSV LRSFLSSEP APTKVIDAK SDAFSDRAI 
HLREDGLVL YLPANTVDK KKGATYEIV LHRPYTESL 
HQTYSLYRS PNLDEAEVK FCVLKDKLP TFVEISKEM 
YNVQGLQKI CDVLAEHPS WNLAHLAAY FSLYDSFKD 
SKINNYLNS TDDETGISP LQVAITTKN LKTVQVLVA 
ANASLEHLD YNSDSVFHY AASTTKDII AALTQGSPP 
NCLNARNKN GYTPLHLAC QADKPDCVR ALLLAGADV 
NKTSGLIDD NVLPGYVGD YLQSHPNSL HKEDMKMGG 
TPLHWACSR EVIEALVDM NCHIDSLNF DKKTALHIM 
VMRNRLECV VALLSRQAD ANIGDAEGN RPIHLAVKQ 
GNISIIQCL IIFGVDLNI LNNAGHSPR HVITKEQEP 
KILYYLHAV GAQRCPPGT PYCTDGCVH GGTFDGVPP 
PPVIGPTNR DVLNQMLDV AAMEIASKK HKDGKMPKN 
GRLLCMDGG GIRGLVLVE MLLEIENVL QKPVSHCFD 
WIAGTSTGG ILALGIASG KTMKECLCL YFRIKELTF 
VGIRPYASE PLENVLKET FGAETVMAD ITHPKVMVT 
GVLADRKPV ELHLFRNYQ SPSDILQVE HNSPYELPP 
PPEEQYVWQ VGRATGAAP TYFRAFGYF LDGGLIANN 
PTLDALSEI HEHHLALKA IGREEDAAP VSVVVSLGT 
GVIPVTPVK DIDVFLPGS IFDGVKLYT GISTLGTLL 
VDQATASDG RVVDRARAW CSTIGVPYF RFSPQMSEE 
IAMNETSDE KLCKMLWET KAYMYKNLN TIKQIADLL 
NTS
    CDS sequence
    • >TC003390 RA
      atgtttgcc caaggattt acaagtgtt ttacgtagc 
ttcctcagt tcagaaccc gccccaacc aaagtgatt 
gacgccaaa tcagacgct ttttccgac cgagcgatt 
cacctacgg gaagatgga ttggtcctc tacctccca 
gctaataca gttgacaag aaaaaaggg gccacttac 
gaaattgtg ctccatcgc ccgtacacg gaaagccta 
caccaaacc tacagttta taccgctcg ccaaatctt 
gacgaagct gaagtgaaa ttttgtgtc ttgaaggat 
aagttaccc acgtttgtt gagatttcg aaagaaatg 
tataatgtg caaggtttg caaaagatt tgtgacgtt 
cttgcggaa cacccctct tggaacttg gcccatttg 
gcggcgtat tttagtctc tatgattct tttaaagac 
tctaagatt aacaattat ttgaatagt actgatgat 
gaaactggg atctcgcca ctacaagtt gctattacc 
acgaagaat ttgaagacg gtgcaagtt ttggttgct 
gcgaatgcg tctttggaa catctcgat tacaactct 
gattcggtg ttccattac gccgctagc accaccaaa 
gatatcatt gccgcgttg acgcaaggc agcccccca 
aactgctta aacgcccgc aacaaaaac ggctacaca 
ccactgcac cttgcctgc caagcggac aaacccgac 
tgcgtccga gccctcctt ctggccgga gccgacgta 
aacaaaacc tcaggtcta atagacgac aacgtccta 
cccggctac gttggcgac tacctccaa agccacccc 
aacagcctc cacaaggag gacatgaaa atggggggc 
accccttta cactgggcc tgttcccgc gaagtaatc 
gaagctcta gtcgacatg aactgccac atagactct 
ctaaacttc gacaaaaaa accgctttg cacatcatg 
gtcatgaga aatcgcctc gaatgcgtt gtagcttta 
ctgagtcgg caagcagac gcaaatatc ggcgatgcc 
gaaggcaac cgaccgatt catttagct gtgaaacaa 
ggcaacata tcgataatc cagtgcttg attattttc 
ggcgtcgat ttgaatatt ttgaacaat gccgggcat 
tcgcccaga catgttata acaaaggag caagagccg 
aaaatcttg tattacttg cacgccgtg ggggcgcag 
cggtgcccc cctggcacg ccctactgc accgacggg 
tgcgtgcat gggggcacc ttcgacggg gttccaccg 
cccccggtg atcggcccc actaaccgt gacgttctg 
aaccaaatg ctcgatgta gcagcgatg gaaatcgcc 
tcaaaaaaa cacaaagat gggaaaatg cccaaaaat 
gggcggctc ctgtgcatg gacgggggc ggaattcgg 
ggcctagtt ctggtggaa atgctgcta gaaattgaa 
aatgtttta cagaaacct gtaagtcat tgtttcgat 
tggattgcg ggaactagc actgggggg attctggca 
ctggggatt gcgagtggt aaaaccatg aaggagtgt 
ctgtgtttg tattttcgg attaaggag ctgacgttt 
gtggggatc aggccgtat gctagtgag ccgctggag 
aatgttttg aaggaaacg ttcggggcc gagactgtg 
atggcggat attacgcat ccgaaggtg atggttacg 
ggggtgctg gctgataga aaaccggtg gagttgcac 
ttgtttagg aattatcaa agtccgagc gatattttg 
caagtggag cataattcg ccgtatgag ttgccgcca 
ccgcccgaa gaacagtat gtgtggcag gttgggagg 
gccactggg gctgctccc acttatttc agagcgttt 
ggctacttt ctggacgga ggcctgatt gcaaacaac 
cccacactg gacgccctg tcggaaatc cacgagcac 
cacttggct ttgaaggcc atcggtcgt gaggaagac 
gccgctccg gtttccgta gtcgtcagt ttgggcaca 
ggggtgatc cctgtaacc cccgtcaag gatatcgac 
gtgtttctt cccggaagc atcttcgac ggagtcaag 
ctttatacc ggtatctca actttggga acacttcta 
gtcgatcag gcaactgct agtgatgga cgagtcgtg 
gacagagct agagcctgg tgctctacc attggagtg 
ccatacttt cgattttcc ccacaaatg tcggaggaa 
atcgcaatg aacgaaact tcggacgag aagttgtgc 
aaaatgctg tgggagacg aaggcgtac atgtataaa 
aatctcaac actattaag cagattgcc gatctactc 
aataccagt taa
    mRNA sequence
    • >TC003390 RA
      tcttaaata aaacacaat gatcggtag tcaatctca 
gtgagtgat tagtgttcg taaccgtat gaatagata 
ttaagtaat aaaatgttt gcccaagga tttacaagt 
gttttacgt agcttcctc agttcagaa cccgcccca 
accaaagtg attgacgcc aaatcagac gctttttcc 
gaccgagcg attcaccta cgggaagat ggattggtc 
ctctacctc ccagctaat acagttgac aagaaaaaa 
ggggccact tacgaaatt gtgctccat cgcccgtac 
acggaaagc ctacaccaa acctacagt ttataccgc 
tcgccaaat cttgacgaa gctgaagtg aaattttgt 
gtcttgaag gataagtta cccacgttt gttgagatt 
tcgaaagaa atgtataat gtgcaaggt ttgcaaaag 
atttgtgac gttcttgcg gaacacccc tcttggaac 
ttggcccat ttggcggcg tattttagt ctctatgat 
tcttttaaa gactctaag attaacaat tatttgaat 
agtactgat gatgaaact gggatctcg ccactacaa 
gttgctatt accacgaag aatttgaag acggtgcaa 
gttttggtt gctgcgaat gcgtctttg gaacatctc 
gattacaac tctgattcg gtgttccat tacgccgct 
agcaccacc aaagatatc attgccgcg ttgacgcaa 
ggcagcccc ccaaactgc ttaaacgcc cgcaacaaa 
aacggctac acaccactg caccttgcc tgccaagcg 
gacaaaccc gactgcgtc cgagccctc cttctggcc 
ggagccgac gtaaacaaa acctcaggt ctaatagac 
gacaacgtc ctacccggc tacgttggc gactacctc 
caaagccac cccaacagc ctccacaag gaggacatg 
aaaatgggg ggcacccct ttacactgg gcctgttcc 
cgcgaagta atcgaagct ctagtcgac atgaactgc 
cacatagac tctctaaac ttcgacaaa aaaaccgct 
ttgcacatc atggtcatg agaaatcgc ctcgaatgc 
gttgtagct ttactgagt cggcaagca gacgcaaat 
atcggcgat gccgaaggc aaccgaccg attcattta 
gctgtgaaa caaggcaac atatcgata atccagtgc 
ttgattatt ttcggcgtc gatttgaat attttgaac 
aatgccggg cattcgccc agacatgtt ataacaaag 
gagcaagag ccgaaaatc ttgtattac ttgcacgcc 
gtgggggcg cagcggtgc ccccctggc acgccctac 
tgcaccgac gggtgcgtg catgggggc accttcgac 
ggggttcca ccgcccccg gtgatcggc cccactaac 
cgtgacgtt ctgaaccaa atgctcgat gtagcagcg 
atggaaatc gcctcaaaa aaacacaaa gatgggaaa 
atgcccaaa aatgggcgg ctcctgtgc atggacggg 
ggcggaatt cggggccta gttctggtg gaaatgctg 
ctagaaatt gaaaatgtt ttacagaaa cctgtaagt 
cattgtttc gattggatt gcgggaact agcactggg 
gggattctg gcactgggg attgcgagt ggtaaaacc 
atgaaggag tgtctgtgt ttgtatttt cggattaag 
gagctgacg tttgtgggg atcaggccg tatgctagt 
gagccgctg gagaatgtt ttgaaggaa acgttcggg 
gccgagact gtgatggcg gatattacg catccgaag 
gtgatggtt acgggggtg ctggctgat agaaaaccg 
gtggagttg cacttgttt aggaattat caaagtccg 
agcgatatt ttgcaagtg gagcataat tcgccgtat 
gagttgccg ccaccgccc gaagaacag tatgtgtgg 
caggttggg agggccact ggggctgct cccacttat 
ttcagagcg tttggctac tttctggac ggaggcctg 
attgcaaac aaccccaca ctggacgcc ctgtcggaa 
atccacgag caccacttg gctttgaag gccatcggt 
cgtgaggaa gacgccgct ccggtttcc gtagtcgtc 
agtttgggc acaggggtg atccctgta acccccgtc 
aaggatatc gacgtgttt cttcccgga agcatcttc 
gacggagtc aagctttat accggtatc tcaactttg 
ggaacactt ctagtcgat caggcaact gctagtgat 
ggacgagtc gtggacaga gctagagcc tggtgctct 
accattgga gtgccatac tttcgattt tccccacaa 
atgtcggag gaaatcgca atgaacgaa acttcggac 
gagaagttg tgcaaaatg ctgtgggag acgaaggcg 
tacatgtat aaaaatctc aacactatt aagcagatt 
gccgatcta ctcaatacc agttaattt acgataacg 
ttcaaattt ttagtaaat tattacatt ttttacaca 
accttttta gcacaatat tctttccgt agtcaattt 
tatcagtgt tgttaaaat gttgatcta gtatgagta 
cagaagtta cggacattt tgcccagtc tacacatta 
aggtaggta cagtagcgt aaaatttgg gggttgaca 
gtaaaatga aattttatt gccaaatta ctacaaaat 
attagaaaa tgttttatt tgataaaag tgaaataat 
tgagtaact aagaaaata agagtttgt atattttat 
tataatttt gtacatttc gctatcaat tcaaaaaaa 
aaaactaaa gaaaaatta tttagtcat agtggaaat 
tttccttct ctgacgtac ttctgaagc gttctttac 
tcaatttca ttttcttga tcttgtgga aataaaaat 
taaaatttt taatttgat tgaaacaaa tatacgtat 
tagaaaact acttatgac ataaacaaa ataataaaa 
aaatgtgat ttgtgagtg gaagaaaat tatgtaaga 
aaaattcgc ttgttaaat caatttatt aaaatcatt 
tcattaaat gttgcagca ctgtaacat tctaataaa 
taaaataaa gtaataagt gcatcgtag attcgtcaa 
ttcttatcg tttatcaat ttatcattg tctaatgtg 
aaaaaatgt accatttca ccagttcat acgtacttg 
tataattag ttaatgttg ttactttac tcggtgatt 
caaaagacc aacacataa ttaccttcc ctaagaaaa 
aaatttttt gtagtaaaa atttgtgtt tttaatgat 
ctatctatg gaaagttgc ttcaaaaaa tcacacaaa 
gtatggtac agttctttt gaatcacgc tgtatgtgg 
tgtataata ttttaataa gttataaat gataatgta 
gttaatttg gacaatcat tgttatcct gattatgtg 
atttttttc atggtgata ataatttta gtgtacgat 
taattaatt aatgtgcat atgaatatg aatgttaat 
atgtgttta aaaaacgga cgatacttc cctgtaggt 
gtccacatt tactttttt tttaattga agagttgag 
atttatctt attttctgc tattgtaaa tcagcacca 
aaattagtt ttctagtat tacagacaa atctgaagt 
tactttgtt ttgattttg ggaacttta gaactattt 
ttttttggg aattatgtt ctgccgtac tgacacttt 
attgttatt tattattgc agaacaggt ctgtccaaa 
atttcaaaa ataatctag tctgaatct gatgaatat 
ttttgcaag tggaacgta tcctaatat ttttttatt 
taaagtatg taagcaatt acacaatgt acgtccgta 
ggtattgtt tttcaaaca tgacaaata attatttag 
tgcattaca tgattaatt aatcaataa gtgtgcaaa 
aatgtgtag ttcagttgt gtgcttaat ttataaaaa 
catagatct tgagcgata cttattcag ggaattgta 
gattttatc aaaatt

    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