Status
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Gene information
General information
TC001067 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: 10477070..10478798
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
      		TC001067
      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 *
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      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_10726

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

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
      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
      • >TC001067 RA
        MYYRGTILD ENVDKRSQY YFQKGGPMY QTLPSKRTQ 
FFQSEINPE RSVTPDITR GLERNPKTT YSSYSRPDQ 
NLLHQKLGI PVKIPDVSN FKLPSQKVP LSYRPIDNY 
QEKPNSYFA HISPHKTTE DSTDSIKIS PIDPRNSGN 
FHSSTPLAK DLKAAVNLE NKLLSPKKS TMSNEELYA 
VIHKNKKKM NINTEENRA SPVSREVVT TPPPVKSPE 
TGYIGDKTR SRLSWSPSK GEYVDFNSD IDKLSPPNE 
SRSRQSWAC SDRKGASQT SRLDFKKLL LQKSNVLAS 
NTKKLSAVE QLKLSKQQI QKSPQPPPM SILELSGSP 
RSLVNRKFA NNRQDSPRS TPEKPKPAP KLMSPRSQW 
RFANPRTDV LSSTILEDC REDESPNNS MEKKKSSPS 
TSENKGTPQ TYSSISQKI QAQRAQFFT SGITDVQSK 
SLKNSQYED QQSKEKCSM PPTLETAF
      CDS sequence
      • >TC001067 RA
        atgtattac agaggaact attttggat gaaaatgtg 
gacaaaagg agtcaatat tatttccaa aagggtggt 
cccatgtac caaacacta ccatcaaaa cgaacccaa 
tttttccaa tcagaaatc aatcccgaa cgatctgtt 
actccagac attaccagg ggcctggaa cgtaacccg 
aaaaccacc tacagctca tattcacgc cccgaccaa 
aacttgcta caccaaaaa ttgggaatt ccagtcaaa 
attcccgac gttagcaac ttcaaacta ccatcacag 
aaagtgcct ttatcgtat cgacctatt gacaattat 
caagagaag cctaactca tatttcgca cacatatca 
ccccataaa accaccgaa gatagcact gattccatc 
aagatttca ccaattgat cctcgtaat tctggcaat 
ttccattct tcaacacct ttagctaaa gatttgaaa 
gccgcagtc aatttagaa aacaagctt ctttcgccc 
aaaaaatca acaatgagt aacgaggaa ctctacgcc 
gttatccac aaaaataaa aagaagatg aacataaac 
acggaggaa aatcgggct tcgcccgta agcagagaa 
gttgttaca actccaccc ccggtcaaa tcacccgaa 
accgggtat atcggggac aaaacccgc tccagactc 
agttggtca ccttccaaa ggcgaatac gttgatttt 
aattcagac attgataag ttatcgccc ccgaacgag 
tcccgctca aggcaaagc tgggcttgc agtgacaga 
aaaggcgca agccaaaca tcacgatta gattttaaa 
aaactgctc ttacaaaag agcaacgtg ctcgctagt 
aacaccaaa aaattatca gctgtcgaa cagctgaaa 
ctctccaaa caacaaatc caaaaatcg ccacaaccc 
cctccgatg agtatcctc gaactgagc gggtccccg 
cggagtctt gtcaatcgc aaattcgcg aacaaccgg 
caagactcg ccacgaagt acccccgaa aagcccaaa 
ccggcgccc aagttaatg tccccaagg tcgcagtgg 
agatttgcc aatccgaga actgatgtt ctctcttct 
acaatactg gaagattgt agagaagac gagagcccg 
aacaattcc atggaaaag aaaaaatcc tcaccgtcg 
accagtgag aacaagggg acgccgcaa acgtattcg 
tccatatct cagaagatt caagctcaa agagcacag 
tttttcact tccggaatt acggacgtt cagtccaag 
tcattgaag aatagtcaa tatgaggat cagcaaagt 
aaggaaaaa tgctcaatg ccgcccaca ttagaaacg 
gcattttaa
      mRNA sequence
      • >TC001067 RA
        caaataaag ttaattgga acgtttctt tcagaccga 
gtaccttca ccatctagt tacccagta aatcatcca 
gctcaagag atgtattac agaggaact attttggat 
gaaaatgtg gacaaaagg agtcaatat tatttccaa 
aagggtggt cccatgtac caaacacta ccatcaaaa 
cgaacccaa tttttccaa tcagaaatc aatcccgaa 
cgatctgtt actccagac attaccagg ggcctggaa 
cgtaacccg aaaaccacc tacagctca tattcacgc 
cccgaccaa aacttgcta caccaaaaa ttgggaatt 
ccagtcaaa attcccgac gttagcaac ttcaaacta 
ccatcacag aaagtgcct ttatcgtat cgacctatt 
gacaattat caagagaag cctaactca tatttcgca 
cacatatca ccccataaa accaccgaa gatagcact 
gattccatc aagatttca ccaattgat cctcgtaat 
tctggcaat ttccattct tcaacacct ttagctaaa 
gatttgaaa gccgcagtc aatttagaa aacaagctt 
ctttcgccc aaaaaatca acaatgagt aacgaggaa 
ctctacgcc gttatccac aaaaataaa aagaagatg 
aacataaac acggaggaa aatcgggct tcgcccgta 
agcagagaa gttgttaca actccaccc ccggtcaaa 
tcacccgaa accgggtat atcggggac aaaacccgc 
tccagactc agttggtca ccttccaaa ggcgaatac 
gttgatttt aattcagac attgataag ttatcgccc 
ccgaacgag tcccgctca aggcaaagc tgggcttgc 
agtgacaga aaaggcgca agccaaaca tcacgatta 
gattttaaa aaactgctc ttacaaaag agcaacgtg 
ctcgctagt aacaccaaa aaattatca gctgtcgaa 
cagctgaaa ctctccaaa caacaaatc caaaaatcg 
ccacaaccc cctccgatg agtatcctc gaactgagc 
gggtccccg cggagtctt gtcaatcgc aaattcgcg 
aacaaccgg caagactcg ccacgaagt acccccgaa 
aagcccaaa ccggcgccc aagttaatg tccccaagg 
tcgcagtgg agatttgcc aatccgaga actgatgtt 
ctctcttct acaatactg gaagattgt agagaagac 
gagagcccg aacaattcc atggaaaag aaaaaatcc 
tcaccgtcg accagtgag aacaagggg acgccgcaa 
acgtattcg tccatatct cagaagatt caagctcaa 
agagcacag tttttcact tccggaatt acggacgtt 
cagtccaag tcattgaag aatagtcaa tatgaggat 
cagcaaagt aaggaaaaa tgctcaatg ccgcccaca 
ttagaaacg gcattttaa tcttcgatt atttattct 
ttttgtaca tacgtttgt atttctcag cattttctt 
gtcttaatt tatttatca ctgtctagt cgacacgcc 
attaggtac atacttttt atatatttt atatttaca 
tgattcaat ttcgtactg tacaaactt ttcctgtag 
ataatacgt aatttgtga ggcttttca atgaagctt 
ttgttgatt cgaatgaca taaattatt ataaatttt 
aatatattg gatttgtaa ataaaagtt ttcttttcg 
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      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