Status
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Gene information
General information
TC016271 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_007424.3: 10234122..10235747
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
      		TC016271
      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_05984

      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: 20.0% (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

      adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
      Days post injection

      Fertility
      mature egg deposition blocked number 1st lateral oviduct: 3 number 2nd lateral oviduct: 2 - Number of animals showing the phenotype: 3
      ovary without detectable defects - Number of animals showing the phenotype: 1
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: < 20
      1
      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
      • >TC016271 RA
        MQVFRALQV LVLLIFVAF TQAKTEESP KNATEEASK 
SLDPTLVQP DDQTDAIRK KKSATTTLC VEIRPSGPY 
QRPFQICEP AESKPYAAP APQGYYPAP AYEEVKPAA 
TPKPAPAYE APAKVYSAP AKPTSAPAY GSSKPYAAH 
SPSSYSSVS YRSDDGMAE MPEEEEEHS DELMDHARS 
AGQEYGLPM TYLQPALKH KAKKGHNGL VITCQPSLA 
GYAATIPSH GPSYGAGPY GGGNMGGYG GYRSSMSRS 
SYGRYERPS PPRGYGGYA PAPAPVYKV PPPPSYYKP 
SYSAPSYSA PVYKPAPAY KPAPSYSAP APAYSAPQP 
AYKPAPAPA YPEPSYQPA PAPQPSYQP APAPQPSYQ 
PAPAPQPSY QPAPAPQPS YQPAPAPQP TYQPAPAPA 
YAPKPHSPP PAPAYAPPP TYGPAPKPH GYPSPVGYR 
EAEEAKMTQ SSHVPSQEE KEKHTVEAM TQMTEARNM 
ALEGKVKMP NPGWNINEE GDNKSNMAE EMRAAEDTN 
ENKV
      CDS sequence
      • >TC016271 RA
        atgcaagtg tttcgtgct ctccaagtg ttagtgctt 
ctcatcttc gtcgccttc actcaggcg aaaaccgag 
gaatctccg aaaaacgcc acagaagaa gcctccaaa 
tccctcgat cctacttta gtgcaaccc gacgaccaa 
accgacgcc atccgcaaa aagaaatca gctactacc 
accctctgc gtcgaaatc aggcccagc ggcccctac 
cagcggccc ttccaaatt tgcgaaccc gccgagtcc 
aaaccatac gccgcccca gctcctcaa ggctactac 
cccgccccg gcttacgaa gaggtcaag cccgccgcc 
acccccaag cccgctccc gcctacgaa gcgcccgcc 
aaggtctac tccgccccc gcaaagcct acctcagcc 
ccggcctac ggttcatca aagccctat gccgcccat 
tcaccctct tcatacagc tcagtctcc taccgttcc 
gacgatggc atggcggaa atgcccgaa gaagaggaa 
gagcattcc gatgagctg atggaccac gcgagatct 
gcagggcaa gagtacgga ctacccatg acctacctc 
caaccggcc ttgaagcac aaggcgaag aagggccac 
aatgggttg gttatcacg tgccaacca tctttggcg 
ggatatgcc gccacgatt cctagtcat ggtcccagc 
tacggtgct ggaccctac ggtggtgga aatatggga 
ggttatggt ggttacaga tcgtccatg tcgaggtca 
tcctacgga agatacgaa cgaccaagt cccccaaga 
ggttacgga ggatacgcc ccagcacct gccccagtt 
tacaaggta ccgccccca ccctcttac tacaaaccc 
tcttacagt gccccctca tactccgcc cctgtttac 
aaaccagcc cccgcctac aaacccgcc cctagctac 
agtgctcct gctccagca tattccgcc ccacaacca 
gcctataaa ccagcccct gctcccgcc tacccagaa 
ccctcatat caaccagcc cccgcccct caaccctcc 
tatcaacca gccccagct ccacaaccc tcttatcaa 
ccagcccca gcccctcag ccatcttac caaccagcc 
ccagctccg caaccctct tatcagcca gccccagct 
ccgcaaccc acttatcaa ccagctcca gccccagcc 
tacgcccct aaaccacac agcccgccc ccagctcca 
gcctacgcc cctcctcca acgtacggg ccagccccc 
aagccacac ggttatcct tctccagtc gggtacagg 
gaagccgaa gaagcgaag atgacgcag tcttcccat 
gttccaagt caagaggaa aaggagaaa cacacggtg 
gaggcgatg actcaaatg actgaagcg cgaaatatg 
gctttggaa ggtaaagtg aagatgcct aacccaggt 
tggaacatc aacgaggag ggtgacaac aaatccaat 
atggccgaa gaaatgaga gctgcggaa gacacgaac 
gaaaacaaa gtttaa
      mRNA sequence
      • >TC016271 RA
        tcgaccagt cagttcctc atcaccacc accatgcaa 
gtgtttcgt gctctccaa gtgttagtg cttctcatc 
ttcgtcgcc ttcactcag gcgaaaacc gaggaatct 
ccgaaaaac gccacagaa gaagcctcc aaatccctc 
gatcctact ttagtgcaa cccgacgac caaaccgac 
gccatccgc aaaaagaaa tcagctact accaccctc 
tgcgtcgaa atcaggccc agcggcccc taccagcgg 
cccttccaa atttgcgaa cccgccgag tccaaacca 
tacgccgcc ccagctcct caaggctac taccccgcc 
ccggcttac gaagaggtc aagcccgcc gccaccccc 
aagcccgct cccgcctac gaagcgccc gccaaggtc 
tactccgcc cccgcaaag cctacctca gccccggcc 
tacggttca tcaaagccc tatgccgcc cattcaccc 
tcttcatac agctcagtc tcctaccgt tccgacgat 
ggcatggcg gaaatgccc gaagaagag gaagagcat 
tccgatgag ctgatggac cacgcgaga tctgcaggg 
caagagtac ggactaccc atgacctac ctccaaccg 
gccttgaag cacaaggcg aagaagggc cacaatggg 
ttggttatc acgtgccaa ccatctttg gcgggatat 
gccgccacg attcctagt catggtccc agctacggt 
gctggaccc tacggtggt ggaaatatg ggaggttat 
ggtggttac agatcgtcc atgtcgagg tcatcctac 
ggaagatac gaacgacca agtccccca agaggttac 
ggaggatac gccccagca cctgcccca gtttacaag 
gtaccgccc ccaccctct tactacaaa ccctcttac 
agtgccccc tcatactcc gcccctgtt tacaaacca 
gcccccgcc tacaaaccc gcccctagc tacagtgct 
cctgctcca gcatattcc gccccacaa ccagcctat 
aaaccagcc cctgctccc gcctaccca gaaccctca 
tatcaacca gcccccgcc cctcaaccc tcctatcaa 
ccagcccca gctccacaa ccctcttat caaccagcc 
ccagcccct cagccatct taccaacca gccccagct 
ccgcaaccc tcttatcag ccagcccca gctccgcaa 
cccacttat caaccagct ccagcccca gcctacgcc 
cctaaacca cacagcccg cccccagct ccagcctac 
gcccctcct ccaacgtac gggccagcc cccaagcca 
cacggttat ccttctcca gtcgggtac agggaagcc 
gaagaagcg aagatgacg cagtcttcc catgttcca 
agtcaagag gaaaaggag aaacacacg gtggaggcg 
atgactcaa atgactgaa gcgcgaaat atggctttg 
gaaggtaaa gtgaagatg cctaaccca ggttggaac 
atcaacgag gagggtgac aacaaatcc aatatggcc 
gaagaaatg agagctgcg gaagacacg aacgaaaac 
aaagtttaa tattttgaa gtgactcat ttattgtaa 
ttttgtaac tttgtactt gaccaatac aatatttaa 
taaaaa

      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