Status
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Gene information
General information
TC007448 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_007419.2: 4341393..4344480
Sequence information
Transcripts / Proteins (3) 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
    		TC007448
    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 *
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04331

    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)

    adult lethality - Number of animals showing the phenotype: 3 (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, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    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 some identifiable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

    head not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen not present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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
    • >TC007448 RA
      MPELQTVNI AASDDPSVL YIPQCTRVE 
RCGGCCSHH LLACQPETK EEIPFKVIK 
TQYTGGKKL KVLSKEVIL VEKHTKCKC 
DCKVRAEDC NRFQEYRKS ECRCACTNY 
DEEKKCNKN SLTKLWNPD LCACQCRET 
MQCSTGSYF DQNECKCLP TPVKRRFAP 
FQRRSYRTQ PFPIVPLDD D
    • >TC007448 RB
      MVLGALVVC LVGINAAQE AMGVFPDDL NLRGDYAVN 
DNTHFHHHH HHHHPGFHN HFDNDDEMG EVDENSKSD 
GSNGTLQIP LDFIKDLNQ HNVSDLLLH YIEEDAVFL 
QDRFGGDEA EERSAATIP KGAPCMPEL QTVNIAASD 
DPSVLYIPQ CTRVERCGG CCSHHLLAC QPETKEEIP 
FKVIKTQYT GGKKLKVLS KEVILVEKH TKCKCDCKV 
RAEDCNRFQ EYRKSECRC ACTNYDEEK KCNKNSLTK 
LWNPDLCAC QCRETMQCS TGSYFDQNE CKCLPTPVK 
RRFAPFQRR SYRTQPFPI VPLDDD
    • >TC007448 RC
      MVLGALVVC LVGINAAQE AMGVFPDDL NLRGDYAVN 
DNTHFHHHH HHHHPGFHN HFDNDDEMG EVDENSKSD 
GSNGTLQIP LDFIKDLNQ HNVSDLLLH YIEEDAVFL 
QVVMSGTQI TKLVQ
    CDS sequence
    • >TC007448 RA
      atgcctgaa ctacagaca gtaaacata gcagcgtct 
gacgatcca agtgttctc tacatcccc caatgtaca 
agggtggag agatgtggg ggctgctgc tctcatcat 
ctcttagct tgtcagccc gaaacgaaa gaagaaatt 
cctttcaag gtcattaaa acgcaatat accggaggt 
aaaaaatta aaagtccta agtaaggaa gttattttg 
gttgaaaaa cacacgaaa tgtaaatgt gattgtaaa 
gtcagagct gaggattgt aacagattt caagagtac 
agaaagtcg gaatgtagg tgtgcctgt actaattat 
gacgaggaa aaaaagtgt aacaaaaac agtttgacc 
aaattgtgg aacccagat ttgtgtgcc tgccagtgt 
cgggagaca atgcagtgc tccaccggc tcgtatttc 
gaccaaaac gaatgcaaa tgtttgcca actcctgtg 
aaaagacgc tttgccccc tttcaaagg aggagctac 
agaacacag cccttccca atagtcccc ttagatgat 
gactag
    • >TC007448 RB
      atggtgctg ggtgcactt gtggtatgt ttggtgggt 
attaacgcg gcccaggaa gccatgggc gtttttccc 
gatgattta aacttaaga ggagattat gccgttaat 
gataacacg cattttcac caccatcac caccaccac 
catccgggg ttccataat cattttgat aatgatgat 
gagatgggt gaggtggac gagaacagt aaaagtgat 
gggtctaat gggaccttg cagattccc ttggatttc 
atcaaagac ctcaaccag cacaacgtt agcgaccta 
ttgctgcac tacatagaa gaagacgct gttttcctt 
caagatcgg tttggggga gatgaggca gaggaaaga 
agcgctgcc actatccca aagggggca ccttgcatg 
cctgaacta cagacagta aacatagca gcgtctgac 
gatccaagt gttctctac atcccccaa tgtacaagg 
gtggagaga tgtgggggc tgctgctct catcatctc 
ttagcttgt cagcccgaa acgaaagaa gaaattcct 
ttcaaggtc attaaaacg caatatacc ggaggtaaa 
aaattaaaa gtcctaagt aaggaagtt attttggtt 
gaaaaacac acgaaatgt aaatgtgat tgtaaagtc 
agagctgag gattgtaac agatttcaa gagtacaga 
aagtcggaa tgtaggtgt gcctgtact aattatgac 
gaggaaaaa aagtgtaac aaaaacagt ttgaccaaa 
ttgtggaac ccagatttg tgtgcctgc cagtgtcgg 
gagacaatg cagtgctcc accggctcg tatttcgac 
caaaacgaa tgcaaatgt ttgccaact cctgtgaaa 
agacgcttt gcccccttt caaaggagg agctacaga 
acacagccc ttcccaata gtcccctta gatgatgac 
tag
    • >TC007448 RC
      atggtgctg ggtgcactt gtggtatgt ttggtgggt 
attaacgcg gcccaggaa gccatgggc gtttttccc 
gatgattta aacttaaga ggagattat gccgttaat 
gataacacg cattttcac caccatcac caccaccac 
catccgggg ttccataat cattttgat aatgatgat 
gagatgggt gaggtggac gagaacagt aaaagtgat 
gggtctaat gggaccttg cagattccc ttggatttc 
atcaaagac ctcaaccag cacaacgtt agcgaccta 
ttgctgcac tacatagaa gaagacgct gttttcctt 
caagttgtc atgtcaggc acacaaatc acaaagcta 
gtacaataa
    mRNA sequence
    • >TC007448 RA
      gagatgagg cagaggaaa gaagcgctg ccactatcc 
caaaggggg caccttgca tgcctgaac tacagacag 
taaacatag cagcgtctg acgatccaa gtgttctct 
acatccccc aatgtacaa gggtggaga gatgtgggg 
gctgctgct ctcatcatc tcttagctt gtcagcccg 
aaacgaaag aagaaattc ctttcaagg tcattaaaa 
cgcaatata ccggaggta aaaaattaa aagtcctaa 
gtaaggaag ttattttgg ttgaaaaac acacgaaat 
gtaaatgtg attgtaaag tcagagctg aggattgta 
acagatttc aagagtaca gaaagtcgg aatgtaggt 
gtgcctgta ctaattatg acgaggaaa aaaagtgta 
acaaaaaca gtttgacca aattgtgga acccagatt 
tgtgtgcct gccagtgtc gggagacaa tgcagtgct 
ccaccggct cgtatttcg accaaaacg aatgcaaat 
gtttgccaa ctcctgtga aaagacgct ttgccccct 
ttcaaagga ggagctaca gaacacagc ccttcccaa 
tagtcccct tagatgatg actagaaca gcatttgta 
ccaaaaacg gcgcccaac ggcccaaac caaactttc 
tttgttgtc catttaaaa ctttaaatg acttaccac 
aatgtggtg caatcagct tgacagctc ccgattgtg 
cattaaatg agtatattt cctaaacaa ataaacatt 
tttaccaac ggtcacttc actgtgttg ttatttttt 
caaaatagt acgtaaaaa tgggtgaag gttaaattt 
tcgaaacca gacagtcca gtttgttaa tcaaaatgg 
cgctggtag cgtcctttt tggttggtg acatgcccg 
gtagatgga gacagtgac accaaattt tcaaaattc 
gaattattt acgcactta cgcaaccaa ttcgttgaa 
aacttactt tcaggccga gttttcgtt catttgaac 
gattttcag taatcggtt ggctatttc agagccgaa 
aaaccggac acggcggca aaattcggg cacaacacg 
ttgattatt gaaaa
    • >TC007448 RB
      gaaaaggtg aaacccaca tcttactca atcaccttc 
gcaaatcaa aacttgacc atcagttcc atcccgacc 
agcgcctgg tctaaacct gtccacttt ctttaatta 
actaatacg taaacaaga tgtgcgtaa tggtgctgg 
gtgcacttg tggtatgtt tggtgggta ttaacgcgg 
cccaggaag ccatgggcg tttttcccg atgatttaa 
acttaagag gagattatg ccgttaatg ataacacgc 
attttcacc accatcacc accaccacc atccggggt 
tccataatc attttgata atgatgatg agatgggtg 
aggtggacg agaacagta aaagtgatg ggtctaatg 
ggaccttgc agattccct tggatttca tcaaagacc 
tcaaccagc acaacgtta gcgacctat tgctgcact 
acatagaag aagacgctg ttttccttc aagatcggt 
ttgggggag atgaggcag aggaaagaa gcgctgcca 
ctatcccaa agggggcac cttgcatgc ctgaactac 
agacagtaa acatagcag cgtctgacg atccaagtg 
ttctctaca tcccccaat gtacaaggg tggagagat 
gtgggggct gctgctctc atcatctct tagcttgtc 
agcccgaaa cgaaagaag aaattcctt tcaaggtca 
ttaaaacgc aatataccg gaggtaaaa aattaaaag 
tcctaagta aggaagtta ttttggttg aaaaacaca 
cgaaatgta aatgtgatt gtaaagtca gagctgagg 
attgtaaca gatttcaag agtacagaa agtcggaat 
gtaggtgtg cctgtacta attatgacg aggaaaaaa 
agtgtaaca aaaacagtt tgaccaaat tgtggaacc 
cagatttgt gtgcctgcc agtgtcggg agacaatgc 
agtgctcca ccggctcgt atttcgacc aaaacgaat 
gcaaatgtt tgccaactc ctgtgaaaa gacgctttg 
ccccctttc aaaggagga gctacagaa cacagccct 
tcccaatag tccccttag atgatgact agaacagca 
tttgtacca aaaacggcg cccaacggc ccaaaccaa 
actttcttt gttgtccat ttaaaactt taaatgact 
taccacaat gtggtgcaa tcagcttga cagctcccg 
attgtgcat taaatgagt atatttcct aaacaaata 
aacattttt accaacggt cacttcact gtgttgtta 
ttttttcaa aatagtacg taaaaatgg gtgaaggtt 
aaattttcg aaaccagac agtccagtt tgttaatca 
aaatggcgc tggtagcgt cctttttgg ttggtgaca 
tgcccggta gatggagac agtgacacc aaattttca 
aaattcgaa ttatttacg cacttacgc aaccaattc 
gttgaaaac ttactttca ggccgagtt ttcgttcat 
ttgaacgat tttcagtaa tcggttggc tatttcaga 
gccgaaaaa ccggacacg gcggcaaaa ttcgggcac 
aacacgttg attattgaa aa
    • >TC007448 RC
      gaaaaggtg aaacccaca tcttactca atcaccttc 
gcaaatcaa aacttgacc atcagttcc atcccgacc 
agcgcctgg tctaaacct gtccacttt ctttaatta 
actaatacg taaacaaga tgtgcgtaa tggtgctgg 
gtgcacttg tggtatgtt tggtgggta ttaacgcgg 
cccaggaag ccatgggcg tttttcccg atgatttaa 
acttaagag gagattatg ccgttaatg ataacacgc 
attttcacc accatcacc accaccacc atccggggt 
tccataatc attttgata atgatgatg agatgggtg 
aggtggacg agaacagta aaagtgatg ggtctaatg 
ggaccttgc agattccct tggatttca tcaaagacc 
tcaaccagc acaacgtta gcgacctat tgctgcact 
acatagaag aagacgctg ttttccttc aagttgtca 
tgtcaggca cacaaatca caaagctag tacaataaa 
aagctatga taaacttaa agtcgcaca acaacaaaa 
taaataatt gcactacaa aggttttgt gcttgaatt 
actttcgca aaattcatg atacaaatt tcggcgaca 
cttgagatt actttcgta aattatgag atagatagt 
acagtcttt aaagctact tttcgtata ccctaggtg 
cagtttcac aggccttcg ccacttggt ctcagtttg 
tagtttttt cgaactggg cttgtgaaa ttcaacagt 
gccttcggc agttaaata tttcaattg tgaaatttc 
cgactcgcc ctcgacggt ttcagtttc ttcaactga 
atcaaattt cattttttt acgcggcga catcagggg 
gctgttgtc aaggccatc gccttgacc tatttctaa 
catactggt agatggctg ggtttgctt tggtggcgt 
cgtttccgt atttacagg ggaagagat taatagcag 
gttttcttc cctaggtgc gaaaattat cactgggtt 
atgcggttt gaaaactac ttactttgg cacttttac 
attatgact ctctttaaa cgctacttt ctcactagg 
aattgtgtt agttatgtg atgagttac tttacaggc 
ttgctcttt gagaaatag tgacacttt tttgttgtc 
cttgattgt tttgccaaa ccaatcgag gacaacatt 
ttctgagag aaaatattt cactgttga attgttatt 
ctcgaatat gtcgacata aaactcgag aacttcctt 
agccgaatc cttttcctc cttagtgta gttttccat 
ttcc

    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