Status
Please wait ...
Gene information
General information
TC008348 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: 8898610..8900537
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
    		TC008348
    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_04472

    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 larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 50.0% (includes death as larva, prepupa, pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008348 RA
      MKLHTFLTT YLTINFASC NTIDSGNDY DFIIVGAGS 
AGSVIASRL SENLIWKIL LLEAGDEGN LISSIPTAV 
SLLPFTKYN WGHFMEVQP NLAQSYNDN RMPWHKGRG 
LGGTSLINY MIYTRGNRF NYDQWAAQG NPGWSYADV 
LPYFIKSEN CSVKNADYA FHGVDGYLG ISEPFQTKI 
TDVFLKGLH ELGLPFIDY NSNKTLGAS PIQANIFQG 
RRHTSADAF LKPVKHRFN LHIKTRAFA RKVLIDEKT 
KHAFGVEYE VSGKIFKAM ARKEVILSA GVINSPQLL 
MLSGIGPKQ ELGQLGISV LKDLQVGRN LQDNLAFLG 
LNFVTPEDV TLRFSKFVN LVSIYEVFE SRTGPWVGA 
GGAQAIAYI KTDESEELG PVPDMELLL IGGSLSTDY 
GLILRTGMN IRDDVYNSL FAPTEGKNS FMIFLSHLT 
PKSKGYIKL RSADPHDYP LMYGNYFTD PGNKDINTF 
LAAVRYVQK LIQTETFKK FKITLIDNP VPGCTHHQY 
DSDDYWRCF LRSLIQTFN HQVGTAKMG PKNDPDAVV 
NHKLEVYGV KGLRVADCS VIPFALSAH TNAPAMMVG 
EKAADIIKN AWKDNLW
    CDS sequence
    • >TC008348 RA
      atgaagctt cacaccttt ttaacaact tacctcacc 
attaatttt gcatcatgt aacaccatt gattcaggc 
aacgactac gattttata attgttggt gctggctca 
gctggaagt gttatagcg agccgatta tcagaaaat 
ctcatttgg aaaattctt cttctcgaa gccggagac 
gaaggcaac ctcatctcg tcaatacca acagcagtg 
tctctccta cctttcact aaatacaac tggggacac 
tttatggaa gtccaacca aacttggcc cagtcctac 
aacgacaat cgaatgcct tggcacaag ggccgaggc 
ttaggcggc acttccctt atcaactac atgatatac 
acccgtgga aataggttc aattacgac cagtgggcc 
gcacaaggc aacccaggt tggtcctac gccgacgtt 
ctaccctat tttatcaaa tcagaaaac tgcagcgtg 
aaaaacgcg gattatgcc tttcacggt gtggacggt 
tatttgggt atctctgag ccgtttcaa actaaaatc 
accgatgtt ttcctcaaa gggctccac gagctgggg 
ctaccattt attgattat aactcaaac aaaacttta 
ggagcttcg ccgattcaa gcgaatatt tttcaaggc 
aggagacac acaagtgcc gatgcgttc ctcaaaccg 
gtgaaacac aggtttaat cttcacatc aaaacgaga 
gctttcgct cggaaagtc ctaattgat gagaagaca 
aaacacgcg tttggtgtt gaatacgaa gtttcgggc 
aaaatattt aaagccatg gctcggaaa gaagtgatt 
ttgtcagcc ggtgttata aattcgccc cagctgctt 
atgctttca gggattggg ccgaagcaa gaattagga 
caattggga atttctgtt ttaaaagac ctccaagtt 
gggagaaat ctgcaagac aatttggct tttctagga 
ctcaatttt gtgacgcct gaagacgtt acattgcgt 
ttctcaaaa tttgtcaac cttgttagt atctacgaa 
gtgtttgag agtaggacg gggccatgg gttggtgca 
ggaggtgcc caagctatc gcctatata aagacggac 
gaatccgag gaattaggg cctgtgcct gatatggaa 
ttattgcta atcggagga tctttatcg accgattat 
ggcctaatt ctccggaca ggaatgaat attagagac 
gatgtttac aattcgctt tttgcccca actgaaggg 
aaaaattcc tttatgatc ttcctctca cacttgacc 
ccgaaatcg aaaggatat ataaaactc cggtcggct 
gaccctcac gactacccc ctcatgtat ggaaattat 
ttcacagat ccgggaaat aaagacata aatacgttt 
ctggctgcg gttagatac gtgcaaaag ctcattcag 
acggaaact ttcaaaaaa ttcaaaata actcttatc 
gataatccg gttcctggc tgcacacat caccagtac 
gatagtgat gattattgg aggtgtttc ctccgatcg 
cttatacaa acttttaat catcaagtc gggacggca 
aaaatgggg cccaagaat gaccccgat gctgtggtg 
aatcacaaa ttggaagtt tacggggtt aagggattg 
cgagtggct gattgtagt gttattcct tttgcactg 
agtgcacac actaatgcc ccagctatg atggtgggc 
gaaaaggca gccgatatt atcaaaaat gcgtggaag 
gataattta tggtaa
    mRNA sequence
    • >TC008348 RA
      ccatttcac aaaaatcca aattagttc caccaacac 
atcatgaag cttcacacc tttttaaca acttacctc 
accattaat tttgcatca tgtaacacc attgattca 
ggcaacgac tacgatttt ataattgtt ggtgctggc 
tcagctgga agtgttata gcgagccga ttatcagaa 
aatctcatt tggaaaatt cttcttctc gaagccgga 
gacgaaggc aacctcatc tcgtcaata ccaacagca 
gtgtctctc ctacctttc actaaatac aactgggga 
cactttatg gaagtccaa ccaaacttg gcccagtcc 
tacaacgac aatcgaatg ccttggcac aagggccga 
ggcttaggc ggcacttcc cttatcaac tacatgata 
tacacccgt ggaaatagg ttcaattac gaccagtgg 
gccgcacaa ggcaaccca ggttggtcc tacgccgac 
gttctaccc tattttatc aaatcagaa aactgcagc 
gtgaaaaac gcggattat gcctttcac ggtgtggac 
ggttatttg ggtatctct gagccgttt caaactaaa 
atcaccgat gttttcctc aaagggctc cacgagctg 
gggctacca tttattgat tataactca aacaaaact 
ttaggagct tcgccgatt caagcgaat atttttcaa 
ggcaggaga cacacaagt gccgatgcg ttcctcaaa 
ccggtgaaa cacaggttt aatcttcac atcaaaacg 
agagctttc gctcggaaa gtcctaatt gatgagaag 
acaaaacac gcgtttggt gttgaatac gaagtttcg 
ggcaaaata tttaaagcc atggctcgg aaagaagtg 
attttgtca gccggtgtt ataaattcg ccccagctg 
cttatgctt tcagggatt gggccgaag caagaatta 
ggacaattg ggaatttct gttttaaaa gacctccaa 
gttgggaga aatctgcaa gacaatttg gcttttcta 
ggactcaat tttgtgacg cctgaagac gttacattg 
cgtttctca aaatttgtc aaccttgtt agtatctac 
gaagtgttt gagagtagg acggggcca tgggttggt 
gcaggaggt gcccaagct atcgcctat ataaagacg 
gacgaatcc gaggaatta gggcctgtg cctgatatg 
gaattattg ctaatcgga ggatcttta tcgaccgat 
tatggccta attctccgg acaggaatg aatattaga 
gacgatgtt tacaattcg ctttttgcc ccaactgaa 
gggaaaaat tcctttatg atcttcctc tcacacttg 
accccgaaa tcgaaagga tatataaaa ctccggtcg 
gctgaccct cacgactac cccctcatg tatggaaat 
tatttcaca gatccggga aataaagac ataaatacg 
tttctggct gcggttaga tacgtgcaa aagctcatt 
cagacggaa actttcaaa aaattcaaa ataactctt 
atcgataat ccggttcct ggctgcaca catcaccag 
tacgatagt gatgattat tggaggtgt ttcctccga 
tcgcttata caaactttt aatcatcaa gtcgggacg 
gcaaaaatg gggcccaag aatgacccc gatgctgtg 
gtgaatcac aaattggaa gtttacggg gttaaggga 
ttgcgagtg gctgattgt agtgttatt ccttttgca 
ctgagtgca cacactaat gccccagct atgatggtg 
ggcgaaaag gcagccgat attatcaaa aatgcgtgg 
aaggataat ttatggtaa aatgactca gagacttga 
aatataaat agattgtac cagtggttt aataaaaaa 
cattttcaa ta

    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