Status
Please wait ...
Gene information
General information
TC005999 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_007423.3: 3803158..3807733
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
      		TC005999
      Gene ontology

      GO terms for Tribolium

      • {{ goTerm.term }}
        ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
        {{goTerm.showAll ? '[-]' : '[+]'}}
        Status: {{ goTerm.status }}
        Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
        Reference: {{ goTerm.referenceText }}
        Quotation: {{ goTerm.quotation }}
        Submitter: {{ goTerm.name }}

      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.
        {{ unavailableText }}

      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_04054

      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: < 50
       antenna unilateral shape irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

      antenna unilateral not present - Penetrance (percentage of animals/eggs on slide): less than 30%
      antenna unilateral partiallynot present - Penetrance (percentage of animals/eggs on slide): less than 30%
      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      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: 0.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 10.0% (includes death as larva, prepupa, pupa, adult)

      eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
      Days post injection

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC005999 RA
        MSVPPNAAP PEPINTEST GWKIFSAFI HDTPLSVPE 
EDLWTYVSD ELKLDTQGI PYECREQLP LILVAFMNI 
WSGWHFKTD FREGKFPKE HYYHRFHKY MRHKLHTAI 
RGQLAVALK AVKDQQQRT AALVQAEPE NKIDSDFSP 
FTIHVQCPA NMLNTIVFS NVGDDIVMK QHLGGEWEE 
LTTTQLLNW PHVEAIFRT KDICFVRRQ RTEYLRYLN 
FLPHESVKH SESVIDNVE ILPNYGNQR RCFSYNFFK 
AYFNTYLEF LEKLVAPVK FNEIQDILT QFLEDVKYI 
NVNNSMVTN TSVSFRLSP VPFIRNKKL VKNSDNKLD 
SRVGYCEII TPQIELILV YCKAEQTDT PYLSFDFIE 
ELKNSDKTE AVIMPSIVY RCTFCSVRF TSHDSKKML 
LQHLKITHK MEQQVRCTY CKKHFNVPS LAANRWSHK 
CQPSQNSSV SRSNNAVSS TSGTSSEQT SITIN
      CDS sequence
      • >TC005999 RA
        atgagtgtg cccccaaat gcagcccct ccggagccc 
atcaacacc gagtccact ggctggaag attttttct 
gcttttatt cacgacacc cctctaagt gtgcccgag 
gaagacctg tggacttac gtttctgac gaactgaag 
ctcgatact caagggatt ccgtacgaa tgcagggaa 
caattgcct ttaatctta gtggcgttt atgaatatc 
tggtccggg tggcacttt aagaccgat tttcgggag 
gggaagttt cccaaggag cattattac catcgtttc 
cacaagtat atgagacac aaattgcac acagccatt 
cgggggcag ctagctgtt gctctcaaa gccgtaaaa 
gaccagcag cagagaacg gctgcgcta gttcaggcg 
gagcctgag aataaaatt gattcggat ttttcgccc 
ttcactatt cacgtgcag tgtccggca aatatgttg 
aatactatt gttttctca aatgttgga gatgatatt 
gtgatgaaa cagcacctt gggggcgaa tgggaggaa 
ttaacaaca acccaactt ttgaactgg cctcacgtt 
gaggcgatt tttcgtacg aaggatatc tgtttcgtg 
cgacggcaa cgcactgaa tatttgcgt tatttaaat 
ttcttaccg cacgaatcg gtcaaacac tcagaatcc 
gtcattgac aacgtggaa attttgccg aattacgga 
aaccaaagg cggtgtttc agctacaac ttcttcaag 
gcgtatttt aacacttat ctcgaattt ttggagaaa 
ttggtcgct ccagtaaaa ttcaacgag atccaagac 
atcctcact cagttcctc gaggacgtg aaatacatc 
aacgtgaat aacagcatg gtgaccaac acttcagtc 
tcattcaga ttatctcca gtgccattc attcgcaat 
aaaaaatta gtgaaaaac tccgataat aaactagac 
tcgagggtg ggatattgt gaaataata acgccacaa 
attgagttg attttggtg tattgcaag gccgaacag 
acggatacg ccatatctc agttttgat ttcatcgaa 
gaactgaaa aattcggac aaaactgag gctgtcatt 
atgccgtcc atagtgtac aggtgtacg ttttgcagt 
gttcgattt acttcgcac gattcgaaa aaaatgtta 
ctgcagcat ttaaaaatt acacacaag atggaacaa 
caagttcgg tgtacttac tgtaagaaa cattttaat 
gtgcccagt ttggcggca aatcggtgg tcacataag 
tgtcagcca agtcaaaat agttcggtt agtcgttct 
aataatgcg gtgtcaagt acttcaggc acttcaagt 
gagcaaacg agtattaca attaattaa
      mRNA sequence
      • >TC005999 RA
        actgtaatt tttttaaag caagtcaaa aatggcggt 
gtttggcca aaagtgagg ttaggtcaa aaaaaaaca 
aaaagtttt tgcaatgag tgtgccccc aaatgcagc 
ccctccgga gcccatcaa caccgagtc cactggctg 
gaagatttt ttctgcttt tattcacga cacccctct 
aagtgtgcc cgaggaaga cctgtggac ttacgtttc 
tgacgaact gaagctcga tactcaagg gattccgta 
cgaatgcag ggaacaatt gcctttaat cttagtggc 
gtttatgaa tatctggtc cgggtggca ctttaagac 
cgattttcg ggaggggaa gtttcccaa ggagcatta 
ttaccatcg tttccacaa gtatatgag acacaaatt 
gcacacagc cattcgggg gcagctagc tgttgctct 
caaagccgt aaaagacca gcagcagag aacggctgc 
gctagttca ggcggagcc tgagaataa aattgattc 
ggatttttc gcccttcac tattcacgt gcagtgtcc 
ggcaaatat gttgaatac tattgtttt ctcaaatgt 
tggagatga tattgtgat gaaacagca ccttggggg 
cgaatggga ggaattaac aacaaccca acttttgaa 
ctggcctca cgttgaggc gatttttcg tacgaagga 
tatctgttt cgtgcgacg gcaacgcac tgaatattt 
gcgttattt aaatttctt accgcacga atcggtcaa 
acactcaga atccgtcat tgacaacgt ggaaatttt 
gccgaatta cggaaacca aaggcggtg tttcagcta 
caacttctt caaggcgta ttttaacac ttatctcga 
atttttgga gaaattggt cgctccagt aaaattcaa 
cgagatcca agacatcct cactcagtt cctcgagga 
cgtgaaata catcaacgt gaataacag catggtgac 
caacacttc agtctcatt cagattatc tccagtgcc 
attcattcg caataaaaa attagtgaa aaactccga 
taataaact agactcgag ggtgggata ttgtgaaat 
aataacgcc acaaattga gttgatttt ggtgtattg 
caaggccga acagacgga tacgccata tctcagttt 
tgatttcat cgaagaact gaaaaattc ggacaaaac 
tgaggctgt cattatgcc gtccatagt gtacaggtg 
tacgttttg cagtgttcg atttacttc gcacgattc 
gaaaaaaat gttactgca gcatttaaa aattacaca 
caagatgga acaacaagt tcggtgtac ttactgtaa 
gaaacattt taatgtgcc cagtttggc ggcaaatcg 
gtggtcaca taagtgtca gccaagtca aaatagttc 
ggttagtcg ttctaataa tgcggtgtc aagtacttc 
aggcacttc aagtgagca aacgagtat tacaattaa 
ttaaaaagt tattgtttg aaggaaaag agaaatgta 
ttttgtatt gtgtgatga tttagtctt ggttgataa 
ttttgccac ttcattttt tacttcggt tgtactcat 
acaaggtga atcagcaaa aaatatttt tactaattt 
tttacgtgt gtttttcca aaacatatc ttttaagct 
tcgttagaa atcttcata tttcgatca attaataac 
tgtagaaaa attcacttg cacagagaa acatataaa 
gtacttaat agcacttaa tagcagcaa tagcactta 
attcggtgt aatcattgt ttttttaga aaaatgcta 
ttagcagac tcacctgta tgccaccag gttaatgta 
tttattatt ttttaactt gtatttaag tatagtatt 
tgtttaatt ttacactta gtcaagaat aagaacatc 
gaagtaagg atttcacgt catgcgttt ttttgttat 
tttctatag ctattaatt taggttctg ttatttaga 
aattttcaa ttttgaaaa ttatttgtg ttatacaat 
ggcgagcaa aaaatttcg ggcaccttt gacatttca 
ctgacataa tcctgtgta attccctat cctttttga 
caatgaagt gacaaaagt gcccgaaat tttttgctc 
gccgttata cgtgaatga taataaaca attatgcat 
ttt

      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