Status
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Gene information
General information
TC003370 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: 2798166..2801220
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
    		TC003370
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07945

    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)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC003370 RA
      MPRRANNSS SEDDPPKKK TCSNSFDLR HGEYLKDIT 
GKQWKLGKP VGVGGFGEI YLASDVLTK EVKTDCQYV 
AKVESHKNG PLFVEVNCY LRIAKREMI EEWKRAKNI 
SSLGMPHYV ASGSHVHKG EKYRFLILP KFDRDLEKV 
LQEKKILNL KTVLTISLQ IIDVLEYIH SKGYMHSDI 
KASNILLSN QNKPKPTVC KRVSSGCTR VSSGCTFTS 
RLRACRKKP TRITRNLRP NAKVAFYLD DIPNFNQIF 
TNCVYEKPT TTQDQIYLL DYGLASKFL TSNGEHKPF 
CVDERKAHA GTVLFCSRD AHKGVHSRR SDLESLGYN 
IIYWLTGTL PWAGDADNP EIVAKKKQR AMADVEYFM 
NYCFSEYPK FLEEYFKYI QKLEFQEKP DYSYCKKLF 
RESLKTNGY KDDSRFDFD NVQRNKLLK PTRIRKRTK 
ENIRARKFI HTISRLPLQ SNIPIKPLL RKKVKNKKV 
KPKANWFGE LTDPEIILK QARKNSENT DANLASNVA 
ELDINALNP TYAMIEVYN KCRERIDAS PTYKSDSCI 
ETVDGYTSA MMSVLEKMK KRRELELEE MAVNLSNTR 
SGRVQKRIR KPNRKYESP DWSPPQTRT SKPVIKKDQ 
ARKVKSGVL RRTYSLRG
    CDS sequence
    • >TC003370 RA
      atgccgaga cgtgctaac aacagttct tctgaggat 
gatcccccc aaaaagaag acttgcagc aactccttt 
gatttaaga catggggag tatctaaaa gacatcacg 
gggaagcag tggaaattg gggaaacct gtgggtgtt 
gggggcttt ggggagatc tacctggcc tctgatgtc 
ctcaccaaa gaggtcaag actgattgt cagtacgtg 
gctaaggtg gaaagccac aaaaacggg ccgcttttt 
gtcgaagtc aattgttac ctgaggatt gctaaacgc 
gaaatgatt gaagagtgg aagcgagca aagaatata 
agttccctc ggaatgccc cactatgtg gcgtcaggt 
tcccacgtc cacaagggt gaaaagtat cgtttctta 
atcctcccg aaatttgac agagacttg gaaaaagtc 
ctccaagag aagaaaatc ctaaatctt aaaacagtg 
ctcacaata tccctccaa ataattgat gttttggaa 
tacatccac agtaaaggc tatatgcac tccgatatc 
aaggcatct aatattctt ctaagtaac caaaataag 
cccaaacca accgtctgt aaacgagtg tcaagcggc 
tgcacacga gtatcaagc ggctgcacg ttcaccagt 
cgtctccgt gcatgtcgc aaaaaacca accagaatc 
actagaaac ttaaggccg aacgctaaa gtcgccttt 
tatctcgac gacatacca aattttaat caaatcttc 
actaattgt gtgtatgaa aaaccaaca acaacacag 
gaccagatt tatctcctt gattacggt ctggcgtcc 
aaatttcta acatcaaac ggcgaacat aaaccgttt 
tgcgttgac gaacgtaaa gctcacgct gggactgtt 
ttattttgt tcgcgtgat gctcacaag ggggtgcat 
tcgcgacgc tcagatttg gagtctttg gggtacaat 
attatttat tggctgact gggactctg ccatgggct 
ggtgatgca gacaacccg gaaatcgta gccaagaag 
aagcagaga gctatggct gatgtggag tattttatg 
aactattgt ttcagtgaa tatcctaag tttctggaa 
gaatatttt aagtatatt cagaaactg gaatttcag 
gaaaagcct gactacagc tactgcaag aagctcttt 
agggagagt ttgaaaacg aacggttac aaagacgat 
tcgcgcttt gactttgac aatgtgcaa agaaacaaa 
ttattgaag ccgactaga atcaggaag agaactaag 
gaaaatatc agggcacgg aaatttatc cacacaata 
tcacgtcta cctctacaa tcaaacatc cccattaaa 
ccgctactg agaaagaaa gtgaaaaat aagaaagta 
aaacctaag gcaaattgg tttggggag ctcactgac 
cctgagata atactgaag caagctcgt aagaatagc 
gaaaatact gacgcaaac ttagctagt aacgttgcg 
gaattagat ataaatgcc ttgaaccca acgtacgct 
atgattgaa gtttataat aaatgtagg gagaggata 
gacgcatca cccacttac aagagtgac agttgtata 
gagaccgtg gatggttac acatctgcg atgatgtct 
gtgttagag aaaatgaaa aagaggaga gagcttgag 
ttggaagaa atggctgtg aatctcagt aatacaagg 
agtggcaga gttcagaaa agaattcgt aaacccaat 
aggaaatat gaatctcca gactggtcg cctcctcag 
acacgaacc tcgaaacca gtgataaag aaggatcaa 
gcacgtaag gtaaaaagt ggggttttg aggaggact 
tacagttta agaggttaa
    mRNA sequence
    • >TC003370 RA
      aggcgtttc aattgagcg aaacgtgaa gatggccgt 
gaaaattgt cagtgacgt ttctttcac cttttgatt 
tttggcaaa ataacagtt tttaccact tttctaact 
tgttgtatg aaaagtaag tattgtttc ttattgttt 
acgaccggg acgtgccac ttgaccttg ctgttgtcg 
ttatgtaaa tgataaggt tattgggga aatgtcgtt 
agattttga aatcttgtt gttatttac ataaaaaaa 
aaacgtttc ttcttgaag ggtcctgtg tctgggtaa 
tcacatgaa ttaggcagg attgtttat agacttcac 
actttcgtt aaaataatg ccgagacgt gctaacaac 
agttcttct gaggatgat ccccccaaa aagaagact 
tgcagcaac tcctttgat ttaagacat ggggagtat 
ctaaaagac atcacgggg aagcagtgg aaattgggg 
aaacctgtg ggtgttggg ggctttggg gagatctac 
ctggcctct gatgtcctc accaaagag gtcaagact 
gattgtcag tacgtggct aaggtggaa agccacaaa 
aacgggccg ctttttgtc gaagtcaat tgttacctg 
aggattgct aaacgcgaa atgattgaa gagtggaag 
cgagcaaag aatataagt tccctcgga atgccccac 
tatgtggcg tcaggttcc cacgtccac aagggtgaa 
aagtatcgt ttcttaatc ctcccgaaa tttgacaga 
gacttggaa aaagtcctc caagagaag aaaatccta 
aatcttaaa acagtgctc acaatatcc ctccaaata 
attgatgtt ttggaatac atccacagt aaaggctat 
atgcactcc gatatcaag gcatctaat attcttcta 
agtaaccaa aataagccc aaaccaacc gtctgtaaa 
cgagtgtca agcggctgc acacgagta tcaagcggc 
tgcacgttc accagtcgt ctccgtgca tgtcgcaaa 
aaaccaacc agaatcact agaaactta aggccgaac 
gctaaagtc gccttttat ctcgacgac ataccaaat 
tttaatcaa atcttcact aattgtgtg tatgaaaaa 
ccaacaaca acacaggac cagatttat ctccttgat 
tacggtctg gcgtccaaa tttctaaca tcaaacggc 
gaacataaa ccgttttgc gttgacgaa cgtaaagct 
cacgctggg actgtttta ttttgttcg cgtgatgct 
cacaagggg gtgcattcg cgacgctca gatttggag 
tctttgggg tacaatatt atttattgg ctgactggg 
actctgcca tgggctggt gatgcagac aacccggaa 
atcgtagcc aagaagaag cagagagct atggctgat 
gtggagtat tttatgaac tattgtttc agtgaatat 
cctaagttt ctggaagaa tattttaag tatattcag 
aaactggaa tttcaggaa aagcctgac tacagctac 
tgcaagaag ctctttagg gagagtttg aaaacgaac 
ggttacaaa gacgattcg cgctttgac tttgacaat 
gtgcaaaga aacaaatta ttgaagccg actagaatc 
aggaagaga actaaggaa aatatcagg gcacggaaa 
tttatccac acaatatca cgtctacct ctacaatca 
aacatcccc attaaaccg ctactgaga aagaaagtg 
aaaaataag aaagtaaaa cctaaggca aattggttt 
ggggagctc actgaccct gagataata ctgaagcaa 
gctcgtaag aatagcgaa aatactgac gcaaactta 
gctagtaac gttgcggaa ttagatata aatgccttg 
aacccaacg tacgctatg attgaagtt tataataaa 
tgtagggag aggatagac gcatcaccc acttacaag 
agtgacagt tgtatagag accgtggat ggttacaca 
tctgcgatg atgtctgtg ttagagaaa atgaaaaag 
aggagagag cttgagttg gaagaaatg gctgtgaat 
ctcagtaat acaaggagt ggcagagtt cagaaaaga 
attcgtaaa cccaatagg aaatatgaa tctccagac 
tggtcgcct cctcagaca cgaacctcg aaaccagtg 
ataaagaag gatcaagca cgtaaggta aaaagtggg 
gttttgagg aggacttac agtttaaga ggttaagtt 
taactactc gtttttacg ttcgtgtat taactatta 
agactgcaa aatttgtga ctagaatac tgagttgtt 
tgtttcaaa aaatgtgca gtagatttg attgtaaat 
gaatagttt gttgattgt aataaataa acagttggc 
gctccaatc aattatcaa ctgaaatta tttctttaa 
ttgtgctcc atataagta cattagtat gattcgctt 
gtaccgcgc caattgttt cttaagtct gaagttata 
gttaattcg gcagttgtg tttgttctt gatttatat 
tatcgtttt aattcatct cagcgcaaa atagtgtaa 
aattcttgt ggtaaattt actgtgatt ttgacttat 
tgtgaaata aaacaat

    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