Status
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Gene information
General information
TC000605 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: 9124761..9134019
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
      		TC000605
      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
      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_00138

      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)

      pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 3 (3 dpi)
      Days post injection

      beetle stock: bad (increased lethality),
      Pupal morphology
      beetle stock: bad (increased lethality),
      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: 11.11% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 11.11% (includes death as larva, prepupa, pupa, adult)

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC000605 RA
        MTFMSKCEK SKVSIGHLG ACTVKPAWP NEDSYAAKT 
LEGGKLRCP APISRLRVE KIEGGLMVA GVVVAANCQ 
IILPIFGFL FLLVGCVLT AASYRGPGE DEEPDHYAA 
RIAFTGNSR ILGPACIVV GVLMLAAGF VLCVLTRRA 
RRREQTIGF HCPLHGDFY PLSPVTSSR TIAAIEKGG 
NTCLMCWPR KRGPGAIAV GPPQCPHSQ VSSTRSSLA 
SSPHSQCPT PLPFLVNSG SVGGLVPVT AQLSPDQPF 
GSIRSLAAG REVASFPLS RTPTPPPSA FERLGSPNL 
VQVPDEEKL VESNFDRVS RSGPRKSVS IVLPSEDKG
      CDS sequence
      • >TC000605 RA
        atgacgttt atgtccaag tgtgaaaaa agcaaagtt 
tcgatcggc catctggga gcttgtaca gttaagcca 
gcatggcct aacgaagac tcatacgcg gccaagacg 
ctggagggc ggcaagttg cggtgcccg gcgccaatt 
tcccgcctc cgggtggag aaaatcgag gggggtctt 
atggtggcc ggagtcgtc gtggctgcc aattgccag 
attatttta cccattttt ggattctta ttcctgctg 
gttggctgt gttttgacc gctgcgtct tatcgtggt 
ccaggtgag gacgaagag ccggaccat tatgcagcc 
cgtatcgca tttacgggt aattcccgc atcttagga 
ccagcttgt atcgtcgtg ggtgtgctt atgttagcc 
gctggtttc gttttatgt gttttgact cgaagagcc 
cgaagacgg gaacaaacc atcggcttt cactgcccc 
ctccatgga gatttctac cccctaagt cccgtaact 
agctcaaga acaatagcc gctattgaa aaaggtggc 
aatacgtgt ttaatgtgt tggcctcga aaaagaggt 
ccaggtgct atcgctgtg ggccctcct cagtgcccc 
cacagtcag gtctcgagc acgaggagt tctctggcg 
agttcgccc catagtcag tgccccacg ccgttacct 
ttcctcgtt aattcagga tcagtcggt ggcctagtc 
ccggtgacg gcacagtta tcgccagat caacccttt 
gggtcgatt cgatcgttg gcagccggc cgagaagtg 
gctagtttc cctttatcg cggacgccc acgccgccc 
ccttcagcg tttgagaga ttaggaagt ccgaatcta 
gtccaagtc cccgacgaa gagaagctc gtagagtca 
aatttcgac cgagtgtcc cggagcggt cctcgaaaa 
tcggtctcg attgtattg ccgtcggag gacaaaggg 
tga
      mRNA sequence
      • >TC000605 RA
        ccagttccg atgtaatca taattcagt tcgaagttg 
acgacagtt cggccatgg caattttca caagatgca 
ccagaaaca tgaccgttg ctaaattgg ggattttgt 
cggccgtta ctgacatga accaagttc tttgtgtgt 
ttatcatcg cacggactc tgcgacaag ctttcagaa 
atttctgaa gcgctcgaa gcgcgtagc gagtttcct 
gcggagtca gtcgttcgc gtgcagccg gtcagaagc 
ctcgctctc acactatgg atcatatct ctttgttac 
ggtaatgaa tgacgatga ttgcccttt gtccgtcac 
tcgccacca ttcagtgat ctgtgtcct gtcgtgtta 
aactatgac gtttatgtc caagtgtga aaaaagcaa 
agtttcgat cggccatct gggagcttg tacagttaa 
gccagcatg gcctaacga agactcata cgcggccaa 
gacgctgga gggcggcaa gttgcggtg cccggcgcc 
aatttcccg cctccgggt ggagaaaat cgagggggg 
tcttatggt ggccggagt cgtcgtggc tgccaattg 
ccagattat tttacccat ttttggatt cttattcct 
gctggttgg ctgtgtttt gaccgctgc gtcttatcg 
tggtccagg tgaggacga agagccgga ccattatgc 
agcccgtat cgcatttac gggtaattc ccgcatctt 
aggaccagc ttgtatcgt cgtgggtgt gcttatgtt 
agccgctgg tttcgtttt atgtgtttt gactcgaag 
agcccgaag acgggaaca aaccatcgg ctttcactg 
ccccctcca tggagattt ctaccccct aagtcccgt 
aactagctc aagaacaat agccgctat tgaaaaagg 
tggcaatac gtgtttaat gtgttggcc tcgaaaaag 
aggtccagg tgctatcgc tgtgggccc tcctcagtg 
cccccacag tcaggtctc gagcacgag gagttctct 
ggcgagttc gccccatag tcagtgccc cacgccgtt 
acctttcct cgttaattc aggatcagt cggtggcct 
agtcccggt gacggcaca gttatcgcc agatcaacc 
ctttgggtc gattcgatc gttggcagc cggccgaga 
agtggctag tttcccttt atcgcggac gcccacgcc 
gcccccttc agcgtttga gagattagg aagtccgaa 
tctagtcca agtccccga cgaagagaa gctcgtaga 
gtcaaattt cgaccgagt gtcccggag cggtcctcg 
aaaatcggt ctcgattgt attgccgtc ggaggacaa 
agggtgacc agctgatta agcaatcag cgttcgcgg 
aaccaagtg tttttcaca aaatccaga ctataaaga 
cattgtcat cttttttat cgaatttcg ttgtgtgtt 
tagcatgtt tggtgtcat aaatggcat tgtttagac 
tgacgtgtt ttattaaaa cctttgtca atgttggac 
gttccacga gtttggctt tttgcctat aaacgtgct 
ccgtaagcg agctaaatt ctagtctgg acaagacta 
aatcaatcg cattgacaa tgggttcaa ttctgtgat 
tcagatcat gttatacgt aattttttt gcagtagct 
tattgtttc acatgaaat ttgatatgt gggacatca 
tcacaatat catgtgtac caaaacggc tgttccccc 
atagttgct tctgtagtt tttctctga atcacgata 
ttatgtgag tgatattac ataatttat tttccaatt 
tgtgtacaa aactgacga aatacttat tcctttctt 
accacagta tgagaaagt tcgtagtaa atgcacatt 
taagactga tttatttaa aactacttt atttttaca 
ttgttaaca tatcaaccg gaaggaata aatatttca 
cgcacccag tccgtactt agcttgcaa tgggatgac 
tagaatttt ttttatccg tccttgagt gccaaaatt 
taacaaaca accaattcg aagcgtttt catttcatt 
tgattcgtt catctcatt gcaattttt ttgtacata 
tgttatgcc cgattttta ttcatttag ctttctgtt 
gagcaaaag ctaaataat aaaaattca actattttg 
tagtacgac aagtgatat gtattatgt ataattaga 
ttatatgtc gaggctgat tacacttta agatttagt 
tttaggata aaatgtttt tactcaacg tgtatatta 
tacaattta attgttaac aaagtaatg gctctattt 
cacttgctc attctttta agataagtt gtaaaacag 
tgattacag ctaactgat ctttattct atacataag 
tttaatgta ttgatcaat aaatagatt aaacgtaa

      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