Status
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Gene information
General information
TC007394 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: 5075150..5080241
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
      		TC007394
      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
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      Email
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      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_10489

      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

      Analysis of embryonic musculature and early development
      number of eggs/embryos/larvae on slide: > 50 larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

      head musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      remarks: muscle pattern potentially obscured by segmentation defect,
      Analysis of larval stage 1 cuticle
      number of eggs/embryos/larvae on slide: > 50
       embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
      cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): less than 30%

      larva dorsal not closed - Penetrance (percentage of animals/eggs on slide): 30% - 50%

      head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

      head appendages random position irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
      labium not present - Penetrance (percentage of animals/eggs on slide): less than 30%

      head not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

      prothorax segment not present - Penetrance (percentage of animals/eggs on slide): less than 30%

      thorax not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
      abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 50% - 80%
      abdomen not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%
      affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
      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
      • >TC007394 RA
        MSITRVSKM PFELNNNSE VYESSYKRN RNESIVSVS 
SASSFHSDS SEDAEGLSR KSSIVQELT QKDNVLENA 
DFRRFRSMS DGAAYRLPN QEPFEVFPS LPDSVLEKM 
GLLGNGPRE RLSDEELEQ KFVALSLAF TIDAATIKD 
RCERQRRYR DQTETNLNT EIERLIEKA NKMQSLCVD 
AETTELLSA LLGQIDIVM KASSHATIS SERYGAVQH 
EHRISESVN VMINHVNLL KQQRDSARR QLQYTKRVL 
QNSNSAEAP QKQMAASQN GRMITKRRA SIATISRPI 
EITAKSTDS RKIMRRTSD LSLRASSLA RSSRPNRLE 
LGVDLVKIK EGMVENEAT TNESCNSDN ESNQDDSSP 
EDSAPSVET DISPLPLRH RLVRRFRRL RKGLEERYD 
RWTEDGTIH EICCFCALM CFSISLIIM ANLLIEVEF 
SKRGLAPSN FFWFWTTNG NTQITKRIQ GGISTT
      CDS sequence
      • >TC007394 RA
        atgtcgata acgcgggtg tcgaagatg ccgttcgaa 
ctaaacaat aattcggaa gtttatgaa agttcctac 
aagagaaac cggaacgaa tctatagtg tccgtatcg 
agtgcctct agtttccat tcggattcc agcgaagat 
gcggagggc ttatcgcga aagtcatcc atagtgcaa 
gaattaaca caaaaggat aatgtgctt gagaacgct 
gatttcagg cgattccga tcgatgtcc gatggggcc 
gcctaccgc ctccccaac caggagcct ttcgaggtc 
ttcccgagt ctgccggac tccgttttg gagaaaatg 
ggactcctc ggcaacggc cccagggag cgcctgagc 
gacgaggag ctggagcag aagttcgtg gcgttgtct 
ctcgccttc accatcgac gcggcaaca atcaaagac 
cgctgcgag cgtcagagg cgctaccgc gaccaaacg 
gagaccaac ctgaacacg gaaatcgag agactgatt 
gagaaagcc aacaaaatg cagtccctc tgcgtggac 
gcggagacc acagagctg ctgtcggcc ctcctaggc 
cagatcgat atcgtcatg aaggcgtct tcacacgcc 
accatttcg tccgaacga tacggagcc gtccagcac 
gagcaccgc atctccgag tccgtcaat gtgatgatc 
aatcatgtg aatctcctc aagcaacaa agggactcg 
gcccggaga caactccag tacacaaag cgggtcctc 
cagaattcg aattcggcg gaagctcca cagaaacag 
atggcggct agccagaac ggtcgaatg attacaaaa 
aggcgggcg agtattgcg acaatttca cgtccgatt 
gaaatcacg gctaaaagt accgattct cgtaaaatt 
atgaggagg acgtcggat ttatccttg cgagcttcc 
tcgttagcg cgcagttct agacctaat cggctagaa 
ctcggtgta gatctagtc aagatcaaa gaaggcatg 
gtggagaac gaagccacg accaacgaa tcctgcaat 
agcgataac gaatcgaat caggacgat tctagtccc 
gaggatagc gcaccttcg gtcgaaact gatatttcg 
ccgctgccc ctcaggcat aggctagtg aggcggttt 
aggcggctg cggaagggc ctggaggag cgatatgac 
aggtggacg gaagacggc acaatccac gagatttgt 
tgtttctgt gcccttatg tgcttctca attagtcta 
ataattatg gccaatctt ttaatagaa gtagagttt 
agtaaacga ggcctggca ccgtcgaat tttttttgg 
ttctggacc accaacggg aatactcaa atcacgaag 
cgcatccaa gggggcatc tcgacgact tga
      mRNA sequence
      • >TC007394 RA
        ggacgactt gcgactctt aaaacgaaa ctcagtcga 
tccgagcga cgcgacgtt tgaaaagcg agccgaaaa 
acataaata atgtcgata acgcgggtg tcgaagatg 
ccgttcgaa ctaaacaat aattcggaa gtttatgaa 
agttcctac aagagaaac cggaacgaa tctatagtg 
tccgtatcg agtgcctct agtttccat tcggattcc 
agcgaagat gcggagggc ttatcgcga aagtcatcc 
atagtgcaa gaattaaca caaaaggat aatgtgctt 
gagaacgct gatttcagg cgattccga tcgatgtcc 
gatggggcc gcctaccgc ctccccaac caggagcct 
ttcgaggtc ttcccgagt ctgccggac tccgttttg 
gagaaaatg ggactcctc ggcaacggc cccagggag 
cgcctgagc gacgaggag ctggagcag aagttcgtg 
gcgttgtct ctcgccttc accatcgac gcggcaaca 
atcaaagac cgctgcgag cgtcagagg cgctaccgc 
gaccaaacg gagaccaac ctgaacacg gaaatcgag 
agactgatt gagaaagcc aacaaaatg cagtccctc 
tgcgtggac gcggagacc acagagctg ctgtcggcc 
ctcctaggc cagatcgat atcgtcatg aaggcgtct 
tcacacgcc accatttcg tccgaacga tacggagcc 
gtccagcac gagcaccgc atctccgag tccgtcaat 
gtgatgatc aatcatgtg aatctcctc aagcaacaa 
agggactcg gcccggaga caactccag tacacaaag 
cgggtcctc cagaattcg aattcggcg gaagctcca 
cagaaacag atggcggct agccagaac ggtcgaatg 
attacaaaa aggcgggcg agtattgcg acaatttca 
cgtccgatt gaaatcacg gctaaaagt accgattct 
cgtaaaatt atgaggagg acgtcggat ttatccttg 
cgagcttcc tcgttagcg cgcagttct agacctaat 
cggctagaa ctcggtgta gatctagtc aagatcaaa 
gaaggcatg gtggagaac gaagccacg accaacgaa 
tcctgcaat agcgataac gaatcgaat caggacgat 
tctagtccc gaggatagc gcaccttcg gtcgaaact 
gatatttcg ccgctgccc ctcaggcat aggctagtg 
aggcggttt aggcggctg cggaagggc ctggaggag 
cgatatgac aggtggacg gaagacggc acaatccac 
gagatttgt tgtttctgt gcccttatg tgcttctca 
attagtcta ataattatg gccaatctt ttaatagaa 
gtagagttt agtaaacga ggcctggca ccgtcgaat 
tttttttgg ttctggacc accaacggg aatactcaa 
atcacgaag cgcatccaa gggggcatc tcgacgact 
tgaccttat ttatttatt taattaaac caaagaata 
aaattattt tcccaaa
      The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY