Status
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Gene information
General information
TC008187 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: 6290440..6292497
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
      		TC008187
      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
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      * : mandatory fields
      For help on how to submit larger datasets or non experimental data please contact us.
      iBeetle screen iB_04441

      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: 10.0% (includes death as pupa, adult)

      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
      Days post injection

      Analysis of embryonic musculature and early development
      number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): more than 80%

      affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 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: 20.0% (includes death as larva, prepupa, pupa)
      Lethalities 22 days after larval injection: 20.0% (includes death as larva, prepupa, pupa, adult)

      larva lethality - Number of animals showing the phenotype: 2 (11 dpi)
      Days post injection

      RNAi sequence
      Primers
      Left: Right:
      Protein sequence
      • >TC008187 RA
        MNMRMFMAC VVLIAVYAN TVTAEADLQ EQNENQYIN 
PVNDYEHEH PTKEQDKRT IFPSHHGWA KHIGIHPSG 
FKYVIGYGP VDLKYVPVV KPVSIKAHP HHHYHHHKV 
HIKRPVVLR PLLPVRPVI HQTGWKPVV PLVKPVHVK 
PVHHVKPVH VHHDHVKPV HVHPVHVHH DHVKPVHVH 
HDHVKPVHV HHDHVKPVH VHHDHVKPV HVHVHHDHV 
KPVHVHPVH VPVKPVVPI VPSKPLIPV AQPVPLVPV 
APAIKPLHP VPVVPPPVF QIIPTGPGG VPLHNPALI 
GQYAPFVHH QHQVFVPQS VVPVHAHPQ PPHIHPGVP 
IHAHPTHIH PQIPHVQHD VQTPLLPHD HPIFHQHPH 
AHIPDHPLV HQHPHAHIP EFYHQQHVP VQHLHPEQH 
PEVFHQPEV PVPDPAIFQ QQLPHDPNS VYHRHPDPP 
LPQHAPTLF NQQINGDVQ HHFSQNIQH GDSATSSII 
LQGAIQPGH TDVQIPLHL PHHPNYAPD EGRHFHPGN 
FHDPSQHPE IVAPNISLE PPFTHKK
      CDS sequence
      • >TC008187 RA
        atgaacatg aggatgttt atggcatgt gttgtgcta 
attgccgtt tatgccaac actgtaacg gccgaagct 
gatttacaa gaacaaaac gaaaaccaa tacataaat 
cctgtcaac gattacgaa catgaacat ccgaccaaa 
gaacaagat aaaagaact atttttccc agccaccat 
ggatgggcc aaacacatc ggtattcac ccatctggg 
ttcaaatac gtcatcggg tacggaccc gttgacctg 
aaatacgta ccggtggta aaacctgtc agtattaag 
gcccatcct caccaccac taccaccat cacaaagtt 
cacataaaa cggcccgtg gtgcttagg ccactgctg 
cccgttcgg ccggtgatt caccaaacc ggctggaag 
ccggtggtt cccctggtt aaaccagtg catgttaaa 
cctgtccat catgttaaa cctgttcat gttcaccac 
gaccacgtt aaacctgtt catgttcat cctgtgcat 
gttcaccac gaccacgtt aaacctgtt catgtccac 
cacgaccac gttaaaccc gttcatgtt caccacgac 
cacgttaaa cccgttcat gttcaccac gaccacgtc 
aaacccgtt catgttcat gttcaccac gatcatgtt 
aaacccgtt catgttcat ccagttcat gttcccgtt 
aaaccagta gttccgatt gtaccatca aaaccttta 
attcctgtg gcacaaccc gtaccatta gtcccagtt 
gccccagct atcaaacct ttgcaccca gttccagtg 
gtaccaccc cctgtattc cagataatc ccaactggt 
cctggaggg gtaccatta cataatccc gctttaatt 
ggacaatat gctcctttt gtgcaccat caacatcaa 
gtttttgtt ccccagtca gtggtacca gtacatgca 
cacccgcag ccaccccac atacaccca ggagtacca 
atccacgca caccctaca catattcac ccccaaata 
ccccacgta caacacgac gttcaaact cctttactc 
ccccatgac catcccatt ttccaccag cacccccat 
gcccacatt cccgaccat ccccttgtg catcaacac 
ccccacgcc catattccc gaattttac caccaacaa 
cacgttccc gttcaacat ttacaccca gaacaacat 
cccgaagtg ttccaccaa ccggaagtc ccagttcca 
gatcccgca atttttcag caacagtta ccccatgac 
cctaattct gtttatcac cgccaccct gatccacca 
ctaccccaa catgcccca actctcttc aaccaacaa 
ataaacgga gatgtgcaa caccacttt agtcaaaat 
attcaacat ggggattcc gctacttct agtattatt 
ttacaagga gccattcaa ccgggacat acagacgtc 
cagattcct ttacattta ccccatcat cccaattat 
gcgccagat gaagggaga catttccat ccaggaaat 
ttccatgat ccttcacaa catcccgaa attgtggct 
ccgaatatt tcactggaa ccgccattt acacacaag 
aaatag
      mRNA sequence
      • >TC008187 RA
        tgtttgtat aaaaacaaa aagaaagtg cccgtttcg 
tttttgtta ttgtaaacc tgcagtgtg atggtgttg 
gtttagttc tttgatttt tgaatacag tgtgttaca 
agtgcaaga atgaacatg aggatgttt atggcatgt 
gttgtgcta attgccgtt tatgccaac actgtaacg 
gccgaagct gatttacaa gaacaaaac gaaaaccaa 
tacataaat cctgtcaac gattacgaa catgaacat 
ccgaccaaa gaacaagat aaaagaact atttttccc 
agccaccat ggatgggcc aaacacatc ggtattcac 
ccatctggg ttcaaatac gtcatcggg tacggaccc 
gttgacctg aaatacgta ccggtggta aaacctgtc 
agtattaag gcccatcct caccaccac taccaccat 
cacaaagtt cacataaaa cggcccgtg gtgcttagg 
ccactgctg cccgttcgg ccggtgatt caccaaacc 
ggctggaag ccggtggtt cccctggtt aaaccagtg 
catgttaaa cctgtccat catgttaaa cctgttcat 
gttcaccac gaccacgtt aaacctgtt catgttcat 
cctgtgcat gttcaccac gaccacgtt aaacctgtt 
catgtccac cacgaccac gttaaaccc gttcatgtt 
caccacgac cacgttaaa cccgttcat gttcaccac 
gaccacgtc aaacccgtt catgttcat gttcaccac 
gatcatgtt aaacccgtt catgttcat ccagttcat 
gttcccgtt aaaccagta gttccgatt gtaccatca 
aaaccttta attcctgtg gcacaaccc gtaccatta 
gtcccagtt gccccagct atcaaacct ttgcaccca 
gttccagtg gtaccaccc cctgtattc cagataatc 
ccaactggt cctggaggg gtaccatta cataatccc 
gctttaatt ggacaatat gctcctttt gtgcaccat 
caacatcaa gtttttgtt ccccagtca gtggtacca 
gtacatgca cacccgcag ccaccccac atacaccca 
ggagtacca atccacgca caccctaca catattcac 
ccccaaata ccccacgta caacacgac gttcaaact 
cctttactc ccccatgac catcccatt ttccaccag 
cacccccat gcccacatt cccgaccat ccccttgtg 
catcaacac ccccacgcc catattccc gaattttac 
caccaacaa cacgttccc gttcaacat ttacaccca 
gaacaacat cccgaagtg ttccaccaa ccggaagtc 
ccagttcca gatcccgca atttttcag caacagtta 
ccccatgac cctaattct gtttatcac cgccaccct 
gatccacca ctaccccaa catgcccca actctcttc 
aaccaacaa ataaacgga gatgtgcaa caccacttt 
agtcaaaat attcaacat ggggattcc gctacttct 
agtattatt ttacaagga gccattcaa ccgggacat 
acagacgtc cagattcct ttacattta ccccatcat 
cccaattat gcgccagat gaagggaga catttccat 
ccaggaaat ttccatgat ccttcacaa catcccgaa 
attgtggct ccgaatatt tcactggaa ccgccattt 
acacacaag aaataggat tgtttctgt tatgtttta 
gtatttatt tttataaag tgtaaataa ttaaagtga 
cacgaagtt atcgcgcac cgggtgctt gtttaagcg 
agtctgaaa atacgggga tattttacc aaatgtatt 
ctttttata ctcttgttt ttccaatgt acaaatgta 
ggatgtatt tttgtaaat aatcgcttc aggaatgca 
gtcaataaa tctgtgatt aatgt

      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