Status
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Gene information
General information
TC003355 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_007418.3: 2083581..2100738
Sequence information
Transcripts / Proteins (2) 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
    		TC003355
    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_03543

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003355 RA
      MWSNSLTAG CNPDSELFP GFGSTCGGS SSSMAYLKS 
APYPVPGLG LHGLPVDSL HSSMAGYPA GNQRKQRRE 
RTTFTRAQL DVLEALFGK TRYPDIFMR EEVALKINL 
PESRVQVWF KNRRAKCRQ QQKQHNQQQ SVEKSSKLK 
NKSAPILTK TSPTPVSIN NNTSTSSSA SSPSVTAAP 
HLRDSPNYI KPQLHVSTG STSSPTIAS ATYTNSANS 
SIWSPASID SFTLEQHRS WCSSSQPVL STTNSTTNC 
YNNYPYYSN MDYLSSSTM SHSQFGENG LETSWGKSR 
DESSWFYNS GWERK
    • >TC003355 RB
      MWSNSLTAG CNPDSELFP GFGSTCGGS SSSMAYLKS 
APYPVPGLG LHGLPVDSL HSSMAGYPA GNQRKQRRE 
RTTFTRAQL DVLEALFGK TRYPDIFMR EEVALKINL 
PESRVQITF GNRHPKATS LSVWFKNRR AKCRQQQKQ 
HNQQQSVEK SSKLKNKSA PILTKTSPT PVSINNNTS 
TSSSASSPS VTAAPHLRD SPNYIKPQL HVSTGSTSS 
PTIASATYT NSANSSIWS PASIDSFTL EQHRSWCSS 
SQPVLSTTN STTNCYNNY PYYSNMDYL SSSTMSHSQ 
FGENGLETS WGKSRDESS WFYNSGWER K
    CDS sequence
    • >TC003355 RA
      atgtggtca aacagcctc actgctgga tgcaacccc 
gacagcgaa ttatttccg ggttttgga agcacttgc 
ggcggaagt tcctcaagt atggcctat ttaaagtcg 
gccccttat cccgtgcca ggcttaggt ttacatgga 
ctcccagta gactccctc cactcgtcc atggctgga 
tatccagca ggtaatcaa cgaaaacag cgtcgggag 
agaacgacc ttcaccagg gctcaactt gacgtcctg 
gaggccctc ttcggaaag acgcgatat cctgacatt 
tttatgaga gaagaggtc gcactcaaa attaatcta 
ccggaatcc agagttcag gtgtggttc aaaaatcgc 
cgggcaaag tgccgccag cagcaaaag cagcacaac 
cagcaacaa agcgtggaa aaaagctcg aaacttaaa 
aacaaaagt gctcccatt ttaacaaaa acatcacca 
acaccagtt tcgataaac aacaacacg agtacgagt 
tcttcagcg agctcaccg agcgtcact gcagcgccc 
caccttaga gacagcccc aactacatc aagccgcaa 
ctacacgta tctacaggg agtacgagc tcaccaacg 
attgcgtca gcaacttac acaaattcg gcaaattcg 
agcatttgg tcgccagcc tcgatagat agctttact 
ttggagcaa cacaggtcc tggtgttcg tcctcacag 
ccggtgcta agcaccact aactcgacc acaaactgt 
tataacaat tacccttat tactccaat atggattat 
ctgagttcg tcgacaatg agccactcg cagttcggg 
gagaacggc ttagaaacc agttggggg aaatcccgg 
gacgagtcc tcctggttc tacaactcc ggatgggag 
cggaaatga
    • >TC003355 RB
      atgtggtca aacagcctc actgctgga tgcaacccc 
gacagcgaa ttatttccg ggttttgga agcacttgc 
ggcggaagt tcctcaagt atggcctat ttaaagtcg 
gccccttat cccgtgcca ggcttaggt ttacatgga 
ctcccagta gactccctc cactcgtcc atggctgga 
tatccagca ggtaatcaa cgaaaacag cgtcgggag 
agaacgacc ttcaccagg gctcaactt gacgtcctg 
gaggccctc ttcggaaag acgcgatat cctgacatt 
tttatgaga gaagaggtc gcactcaaa attaatcta 
ccggaatcc agagttcag atcactttc ggtaaccgg 
cacccaaaa gcgacttca ctttcggtg tggttcaaa 
aatcgccgg gcaaagtgc cgccagcag caaaagcag 
cacaaccag caacaaagc gtggaaaaa agctcgaaa 
cttaaaaac aaaagtgct cccatttta acaaaaaca 
tcaccaaca ccagtttcg ataaacaac aacacgagt 
acgagttct tcagcgagc tcaccgagc gtcactgca 
gcgccccac cttagagac agccccaac tacatcaag 
ccgcaacta cacgtatct acagggagt acgagctca 
ccaacgatt gcgtcagca acttacaca aattcggca 
aattcgagc atttggtcg ccagcctcg atagatagc 
tttactttg gagcaacac aggtcctgg tgttcgtcc 
tcacagccg gtgctaagc accactaac tcgaccaca 
aactgttat aacaattac ccttattac tccaatatg 
gattatctg agttcgtcg acaatgagc cactcgcag 
ttcggggag aacggctta gaaaccagt tgggggaaa 
tcccgggac gagtcctcc tggttctac aactccgga 
tgggagcgg aaatga
    mRNA sequence
    • >TC003355 RA
      ctcatctgt ttctttgca cctcttttt ttcccaaag 
ggaccaaag tagatgtgg tcaaacagc ctcactgct 
ggatgcaac cccgacagc gaattattt ccgggtttt 
ggaagcact tgcggcgga agttcctca agtatggcc 
tatttaaag tcggcccct tatcccgtg ccaggctta 
ggtttacat ggactccca gtagactcc ctccactcg 
tccatggct ggatatcca gcaggtaat caacgaaaa 
cagcgtcgg gagagaacg accttcacc agggctcaa 
cttgacgtc ctggaggcc ctcttcgga aagacgcga 
tatcctgac atttttatg agagaagag gtcgcactc 
aaaattaat ctaccggaa tccagagtt caggtgtgg 
ttcaaaaat cgccgggca aagtgccgc cagcagcaa 
aagcagcac aaccagcaa caaagcgtg gaaaaaagc 
tcgaaactt aaaaacaaa agtgctccc attttaaca 
aaaacatca ccaacacca gtttcgata aacaacaac 
acgagtacg agttcttca gcgagctca ccgagcgtc 
actgcagcg ccccacctt agagacagc cccaactac 
atcaagccg caactacac gtatctaca gggagtacg 
agctcacca acgattgcg tcagcaact tacacaaat 
tcggcaaat tcgagcatt tggtcgcca gcctcgata 
gatagcttt actttggag caacacagg tcctggtgt 
tcgtcctca cagccggtg ctaagcacc actaactcg 
accacaaac tgttataac aattaccct tattactcc 
aatatggat tatctgagt tcgtcgaca atgagccac 
tcgcagttc ggggagaac ggcttagaa accagttgg 
gggaaatcc cgggacgag tcctcctgg ttctacaac 
tccggatgg gagcggaaa tgaaaagaa acagccggg 
ggaagcaaa gagaattgc aatttttag tcaaatctt 
tcatgtaac taactaact gcttcgatt catcactat 
atcaatcaa aattgcaat aggagatat ttttgtaag 
tttggttca gccaacgtg caataactt ggggtttca 
tatcattag ttgtgtata tacctacta gatggaaca 
ttctgtaca gtgttagta tagttgtac gagtagttg 
tatagtttt gaccaatac aataaattt tacgaattt 
at
    • >TC003355 RB
      ctcatctgt ttctttgca cctcttttt ttcccaaag 
ggaccaaag tagatgtgg tcaaacagc ctcactgct 
ggatgcaac cccgacagc gaattattt ccgggtttt 
ggaagcact tgcggcgga agttcctca agtatggcc 
tatttaaag tcggcccct tatcccgtg ccaggctta 
ggtttacat ggactccca gtagactcc ctccactcg 
tccatggct ggatatcca gcaggtaat caacgaaaa 
cagcgtcgg gagagaacg accttcacc agggctcaa 
cttgacgtc ctggaggcc ctcttcgga aagacgcga 
tatcctgac atttttatg agagaagag gtcgcactc 
aaaattaat ctaccggaa tccagagtt cagatcact 
ttcggtaac cggcaccca aaagcgact tcactttcg 
gtgtggttc aaaaatcgc cgggcaaag tgccgccag 
cagcaaaag cagcacaac cagcaacaa agcgtggaa 
aaaagctcg aaacttaaa aacaaaagt gctcccatt 
ttaacaaaa acatcacca acaccagtt tcgataaac 
aacaacacg agtacgagt tcttcagcg agctcaccg 
agcgtcact gcagcgccc caccttaga gacagcccc 
aactacatc aagccgcaa ctacacgta tctacaggg 
agtacgagc tcaccaacg attgcgtca gcaacttac 
acaaattcg gcaaattcg agcatttgg tcgccagcc 
tcgatagat agctttact ttggagcaa cacaggtcc 
tggtgttcg tcctcacag ccggtgcta agcaccact 
aactcgacc acaaactgt tataacaat tacccttat 
tactccaat atggattat ctgagttcg tcgacaatg 
agccactcg cagttcggg gagaacggc ttagaaacc 
agttggggg aaatcccgg gacgagtcc tcctggttc 
tacaactcc ggatgggag cggaaatga aaagaaaca 
gccggggga agcaaagag aattgcaat ttttagtca 
aatctttca tgtaactaa ctaactgct tcgattcat 
cactatatc aatcaaaat tgcaatagg agatatttt 
tgtaagttt ggttcagcc aacgtgcaa taacttggg 
gtttcatat cattagttg tgtatatac ctactagat 
ggaacattc tgtacagtg ttagtatag ttgtacgag 
tagttgtat agttttgac caatacaat aaattttac 
gaatttat

    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