Status
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Gene information
General information
TC001086 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: 10695800..10704063
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
      		TC001086
      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_03134

      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: 50.0% (includes death as pupa, adult)

      eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
      Days post injection

      adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
      Days post injection

      adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
      Days post injection

      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
      • >TC001086 RA
        MMETDKIDD SNSNSQQYP MTILSPYDT ARKKEPSAT 
FNAERETCL KCFEKWSET DQVEFVENL LARMCHYQH 
GHINSYLKP MLQRDFISL LPKQGLDHV AENILSYLE 
ADSLRNAEL VCKEWFRVI SEGMLWKKL IERKVRTDS 
LWRGLAERR QWIQYLFKP RPGENHRPH SFYRALFPK 
IIRDIESIE SNWRNGRHI LQRINCRSE NSKGVYCLQ 
YDDQKIVSG LRDNTIKIW DRSTLQCTK VLIGHTGSV 
LCLQYDDKV IISGSSDST VRVWNVNTG EMVNTLIHH 
CEAVLHLRF NNGMMVTCS KDRSIAVWD MTSPNEITL 
RRVLVGHRA AVNVVDFDE KYIVSASGD RTIKVWNTS 
TCEFMRTLN GHKRGIACL QYRDRLVVS GSSDNTIRL 
WDIEGGACL RVLEGHEEL VRCIRFDSK RIVSGAYDG 
KIKVWDLVA ALDPRTPAS ALCLRTLVE HTGRVFRLQ 
FDEFQIVSS SHDDTILIW NFLNSIGER NTKSPSPSP 
FE
      CDS sequence
      • >TC001086 RA
        atgatggaa acagataaa attgacgat tcgaacagt 
aattcacaa cagtatcca atgacaata ttatcaccg 
tacgatacg gccaggaag aaagagcct tcggctact 
tttaacgcg gagagagaa acatgtctg aaatgcttc 
gaaaaatgg agcgaaacc gaccaagtc gaattcgta 
gaaaattta ctagctagg atgtgtcac taccaacac 
gggcacatc aattcctat ttgaaaccc atgctgcag 
cgagatttc atatctctt ttaccaaag caaggattg 
gaccacgtc gctgagaat atattgtca tatttggag 
gcggacagt ttacggaac gccgagttg gtctgcaaa 
gaatggttt agggtaatc tcagagggt atgctttgg 
aagaagcta atcgagcgg aaagttcgg acggattca 
ctgtggaga ggtttagcc gaacgcaga caatggata 
caatattta ttcaaacca cgacctggc gagaaccat 
cgtccccat tcgttctat cgagccctt ttcccgaaa 
atcatccgc gatatcgaa agcatagaa agtaattgg 
cggaacggt cggcacatc ttgcagcga atcaactgc 
cggtccgaa aatagcaaa ggggtttac tgtttgcag 
tacgacgat cagaaaatc gtgtcgggt ctcagggac 
aatactatt aaaatatgg gacagaagt acattgcag 
tgcactaaa gttcttata ggacatacg ggatcggtt 
ttgtgttta caatacgac gataaagtt attattagt 
ggttctagt gattcaact gtgcgcgtc tggaacgtt 
aacacggga gaaatggtc aatacgctc atacatcat 
tgcgaagcc gtccttcat cttagattc aataacgga 
atgatggtc acctgttca aaagatcgc tcgatagct 
gtgtgggac atgacatcg ccgaacgag atcaccctg 
cggcgggtg ctggtgggg cacagggcc gccgtgaac 
gtggtcgat ttcgacgag aaatacata gtttcggcg 
tcgggtgac cgaacgata aaagtgtgg aacacctca 
acttgtgag tttatgcga acgttaaac ggacataaa 
cgggggatc gcctgtttg caataccga gataggttg 
gtcgtaagc ggaagttcg gacaatacc ataaggttg 
tgggatatc gaaggtggc gcttgtctg cgggtgctt 
gaagggcac gaagagtta gtgcgttgt atccgtttc 
gattcgaaa cggattgtc agcggggct tatgatggg 
aaaattaaa gtttgggat ctcgttgcc gcgcttgat 
cccagaacg ccggccagt gctttatgt cttcgaaca 
ttggtagaa cacacaggt agagtattc aggttgcag 
tttgacgag tttcaaata gtgagcagt tcgcacgat 
gatacaatt cttatttgg aatttcctc aactcaatt 
ggagagaga aacacgaaa tcgccttcg ccctctccg 
tttgagtaa
      mRNA sequence
      • >TC001086 RA
        tcagggttt ttgtttttg tccccagac tccttgcca 
gaatggtaa gctattttt ttgcccatt ctacaagtg 
aaatgggtt tgtgagctt tggttgttt gttctttta 
cactgtggc cccgaagta aagttgtaa atattcttt 
ctggtgttt tacggttgt tttaacgct tttatgtga 
aacaatgtg gcagtggta gtggtgcgg atgcaaaaa 
tcgcgaccg tgaggtgga cacaactcg cttcatcga 
tgatgatgg aaacagata aaattgacg attcgaaca 
gtaattcac aacagtatc caatgacaa tattatcac 
cgtacgata cggccagga agaaagagc cttcggcta 
cttttaacg cggagagag aaacatgtc tgaaatgct 
tcgaaaaat ggagcgaaa ccgaccaag tcgaattcg 
tagaaaatt tactagcta ggatgtgtc actaccaac 
acgggcaca tcaattcct atttgaaac ccatgctgc 
agcgagatt tcatatctc ttttaccaa agcaaggat 
tggaccacg tcgctgaga atatattgt catatttgg 
aggcggaca gtttacgga acgccgagt tggtctgca 
aagaatggt ttagggtaa tctcagagg gtatgcttt 
ggaagaagc taatcgagc ggaaagttc ggacggatt 
cactgtgga gaggtttag ccgaacgca gacaatgga 
tacaatatt tattcaaac cacgacctg gcgagaacc 
atcgtcccc attcgttct atcgagccc ttttcccga 
aaatcatcc gcgatatcg aaagcatag aaagtaatt 
ggcggaacg gtcggcaca tcttgcagc gaatcaact 
gccggtccg aaaatagca aaggggttt actgtttgc 
agtacgacg atcagaaaa tcgtgtcgg gtctcaggg 
acaatacta ttaaaatat gggacagaa gtacattgc 
agtgcacta aagttctta taggacata cgggatcgg 
ttttgtgtt tacaatacg acgataaag ttattatta 
gtggttcta gtgattcaa ctgtgcgcg tctggaacg 
ttaacacgg gagaaatgg tcaatacgc tcatacatc 
attgcgaag ccgtccttc atcttagat tcaataacg 
gaatgatgg tcacctgtt caaaagatc gctcgatag 
ctgtgtggg acatgacat cgccgaacg agatcaccc 
tgcggcggg tgctggtgg ggcacaggg ccgccgtga 
acgtggtcg atttcgacg agaaataca tagtttcgg 
cgtcgggtg accgaacga taaaagtgt ggaacacct 
caacttgtg agtttatgc gaacgttaa acggacata 
aacggggga tcgcctgtt tgcaatacc gagataggt 
tggtcgtaa gcggaagtt cggacaata ccataaggt 
tgtgggata tcgaaggtg gcgcttgtc tgcgggtgc 
ttgaagggc acgaagagt tagtgcgtt gtatccgtt 
tcgattcga aacggattg tcagcgggg cttatgatg 
ggaaaatta aagtttggg atctcgttg ccgcgcttg 
atcccagaa cgccggcca gtgctttat gtcttcgaa 
cattggtag aacacacag gtagagtat tcaggttgc 
agtttgacg agtttcaaa tagtgagca gttcgcacg 
atgatacaa ttcttattt ggaatttcc tcaactcaa 
ttggagaga gaaacacga aatcgcctt cgccctctc 
cgtttgagt aaattgtcc agaagccaa tttgtcatc 
atgtgtgtg tgagtgtgg aagagacaa ttttggagc 
aagtgctcg cataaactg actaggaat ataaaattt 
agaaaatta tttgtaata attgtgtat aatgttata 
tttaaattg gatatattt atgtcttaa tttataata 
tgaagcgta tttgacata attggagtt cgtttttta 
cgtgtttcg tctttatga aaaattttt gctgttgtg 
tttcctaga ccgaattaa gatgtcgac acaaaacct 
ctgttgatc tgttgtaac ctaaatgag tttaactac 
gaattatgt gatagtacg tttaaaaca tctaaagtg 
cggttttca tcgtgtgcg ccattaatc ttgttgacg 
ttttacatt tgttttatt tcgttatcg ttgaatttg 
caaaaatga acaactaat tttagctct ctagtctat 
gaaatttca atgataggc tacacacgt tattttagg 
aatcaagtt gttttaaaa ttctcacac tatagtgcg 
gtttctaca gtttgttgg gctttctag tctgtaatc 
attctttgc aaacttaga aagtgagtt tagtcggca 
aaaattgta tagtaagtt ttaaattta taggatttt 
ggggtgaat tcagtgatg attaatttt agtttagga 
ttattttac atcattttc atcaagttg gaaattgtg 
atctattat ttagggttc tccatattt attatggga 
aaatgattg caaccaaaa gtacttttt gttttgttt 
ggtgcatta atttaatga ggctgcaag tgtactggg 
attccaaga agtggccac gggctgttc ttgctattt 
attttagac gattctgcc aaaatgtag tatttctcc 
tagattaga tttacaagt aaacttata acggctttt 
gtgataaaa tcttacagt aaaatttgt atgcctgtt 
ttgtactat aactggaat gtacactat tcatgttaa 
aaaaaaaca ctatcaata aggcactaa atcatttta 
taggttaat gtaaatatt atgaatgta gtggtaaca 
tcatttgca tttactatt tttatttag agttattta 
tattttatg cgtgtaagt aatacattt tgctgagac 
aa

      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