Status
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Gene information
General information
TC008304 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: 8160414..8174909
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
    		TC008304
    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 *
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04461

    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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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): more than 80%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - 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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008304 RA
      MLCGEFHKA PLGFYVNFA SLSDSRSPY SSLLTLVQS 
MAALTAHAA HEEEDIFLE NGLLSYENP NYHLDPTRI 
DDALNSNTN LYEDIYQEL DDICNIGHS IKEPGRKAY 
AALDIGTMG VDITSGPLT NINDNKRSN ERNGNAYVM 
DNSEKRATR ENISEKTAK NNKDNQEKG VPHIPGQLN 
NDLYAVPVK KKNQKCAEE IEIYSPDKE SADDTDLPP 
GWEKHEDND GPYYWHIKS GTIQREVPV LPESEKPKK 
LDSKHNINK ENDVLMMTF ENSIGSVTR SSTSSALDL 
ESEDRKRKN DLTFKRRSY PSKPEQESR ERPIRFAVR 
SLGWVEIAE EDLTPERSS KAVNKCIVD LSVGKNDLL 
DVVGRWGDG KDLFMDLDE GALKLIDPE NLTVLNTQP 
IHTIRVWGV GRDNGRDFA YVARDRSTR KHMCHVFRC 
DMPARTIAN TLRDICKKI MIERSLQQN LAKPIDING 
RTLATRPTN LPTEHRRLT RNGQSLVTQ SFPTPMEEP 
KKVLRAQYL GTTQVSQAT GMEVLNEAI DRLVATVPP 
EQWQCVNVA VAPSMISIQ CPSDDRLIA ECRVRYLSF 
LGIGKIIKH CAFVMHTAQ DTFVAHVFY CEPSSGALC 
KTIEAACKL RYQKCLDAH PQGLERNNS NLHTPGKSI 
GAALKSIVG SLTGRKSRS SDS
    CDS sequence
    • >TC008304 RA
      atgttgtgt ggcgagttc cacaaagcg cctctcggt 
ttctacgta aattttgcg agcctttcg gattcccgt 
agtccgtat tcgtctttg cttactcta gtccagagc 
atggcagct ttaacggct catgcagcg cacgaagaa 
gaggatata tttctcgaa aacggtctt ttaagctac 
gaaaatcca aactatcat ttggacccg acgcgtatc 
gacgatgct ctaaattca aacacgaat ctctacgag 
gatatttat caggagttg gatgatatt tgcaatatc 
gggcacagt atcaaggag cctgggcgg aaggcgtac 
gctgccttg gatatcggc accatgggg gtggacatc 
acgagcggg cccttgacg aacatcaat gacaataaa 
aggagtaat gaacgcaat ggaaatgca tacgtcatg 
gataacagc gaaaaaaga gcaacgcga gaaaacatt 
agcgagaag acggcgaag aacaacaag gacaatcag 
gagaagggc gtgccacac atacccggc cagcttaat 
aatgattta tatgccgtt ccggtgaag aaaaagaat 
caaaaatgt gcggaagaa attgagata tactcgccc 
gataaagag agcgccgac gatactgat ttacctccc 
ggctgggag aagcacgaa gacaatgat ggcccctac 
tattggcac ataaagagc ggaacgatc cagcgcgag 
gtcccagtg ctacccgag agcgaaaaa ccgaaaaaa 
ctcgactcg aaacacaac attaataaa gaaaacgat 
gttttaatg atgactttt gagaacagc atcggctcc 
gtcaccaga agtagcacc agctcggcc ctggacctc 
gagtcggag gaccgcaag cggaaaaat gatctgact 
tttaaacgg cgaagttac ccttcgaag cctgagcaa 
gagtcacgc gagcgacca atccgattc gcggttcgg 
tctttgggc tgggttgaa atcgccgaa gaggatttg 
actccggag aggagtagt aaagctgta aataaatgt 
attgttgat ttatcggtt ggaaagaat gaccttttg 
gatgttgtg ggccgatgg ggagatggt aaggatttg 
ttcatggat ttggacgag ggtgcgtta aaattaatc 
gatccggag aatctgacc gttttaaat actcaacct 
attcacact ataagggtt tggggagtg ggacgcgat 
aatggaaga gattttgct tacgtagct agggaccga 
agtacccgg aaacacatg tgtcacgtg tttcgttgc 
gacatgcct gcccgcact attgccaat actttaaga 
gacatttgt aaaaaaata atgatagaa cgaagtttg 
caacagaat ttagctaaa ccaatcgat atcaacggt 
cggacgtta gctacgcga cctacaaac ctaccaact 
gaacatcga cgattaact cgtaacggc cagtcttta 
gttacccag tcgtttccc actcctatg gaagaacca 
aagaaagta cttagggct caatatttg ggcaccact 
caagtctca caagccact ggaatggaa gttttgaac 
gaggctatt gacagactt gtggcgact gtccctcca 
gagcagtgg cagtgtgtt aacgtagct gtggctccg 
tctatgata tcaatccaa tgtccaagt gacgatagg 
ctgatagcg gaatgccgc gtccgctac ttgtccttc 
ttaggcata ggaaaaatt atcaaacac tgtgctttc 
gtaatgcat acggcacag gacactttt gttgcacat 
gtgttttac tgcgaaccg tcttctggt gccctttgt 
aagacaatt gaggcggct tgcaagttg agataccag 
aagtgtctc gacgcgcac cctcaaggt ctcgaacga 
aacaattca aacctccac actcctgga aaaagtatt 
ggagcggcg ttgaaatca atcgttggg tctttaacc 
ggacggaaa agtaggagt agtgattct tga
    mRNA sequence
    • >TC008304 RA
      cagttaagc agaaaatta aagctacat ttgcatata 
acgggagct taatttgct actagacaa gaaataaat 
aataatcaa ataaaaaaa ctgtaaaat tattaaaat 
cggtggtag aggtgtggt ttggaagag gcttggcct 
cccactttt ttgacaatc gaaccattt ctaccaact 
ctcgattca ctcagtgtc tacttcggt tgtagagag 
gttaataac accaataaa ttattttat tgagtgagt 
actgtgctc aaattttca tattcgtat tgattttcg 
tagtttcta gttagaaaa agtagtgga tattgctac 
aactgcatg ggaggtatt agggctaag cgctgctct 
ccattctgc agggggagg tagaaagga atggtagtt 
ctgctcggg gatgttgtg tggcgagtt ccacaaagc 
gcctctcgg tttctacgt aaattttgc gagcctttc 
ggattcccg tagtccgta ttcgtcttt gcttactct 
agtccagag catggcagc tttaacggc tcatgcagc 
gcacgaaga agaggatat atttctcga aaacggtct 
tttaagcta cgaaaatcc aaactatca tttggaccc 
gacgcgtat cgacgatgc tctaaattc aaacacgaa 
tctctacga ggatattta tcaggagtt ggatgatat 
ttgcaatat cgggcacag tatcaagga gcctgggcg 
gaaggcgta cgctgcctt ggatatcgg caccatggg 
ggtggacat cacgagcgg gcccttgac gaacatcaa 
tgacaataa aaggagtaa tgaacgcaa tggaaatgc 
atacgtcat ggataacag cgaaaaaag agcaacgcg 
agaaaacat tagcgagaa gacggcgaa gaacaacaa 
ggacaatca ggagaaggg cgtgccaca catacccgg 
ccagcttaa taatgattt atatgccgt tccggtgaa 
gaaaaagaa tcaaaaatg tgcggaaga aattgagat 
atactcgcc cgataaaga gagcgccga cgatactga 
tttacctcc cggctggga gaagcacga agacaatga 
tggccccta ctattggca cataaagag cggaacgat 
ccagcgcga ggtcccagt gctacccga gagcgaaaa 
accgaaaaa actcgactc gaaacacaa cattaataa 
agaaaacga tgttttaat gatgacttt tgagaacag 
catcggctc cgtcaccag aagtagcac cagctcggc 
cctggacct cgagtcgga ggaccgcaa gcggaaaaa 
tgatctgac ttttaaacg gcgaagtta cccttcgaa 
gcctgagca agagtcacg cgagcgacc aatccgatt 
cgcggttcg gtctttggg ctgggttga aatcgccga 
agaggattt gactccgga gaggagtag taaagctgt 
aaataaatg tattgttga tttatcggt tggaaagaa 
tgacctttt ggatgttgt gggccgatg gggagatgg 
taaggattt gttcatgga tttggacga gggtgcgtt 
aaaattaat cgatccgga gaatctgac cgttttaaa 
tactcaacc tattcacac tataagggt ttggggagt 
gggacgcga taatggaag agattttgc ttacgtagc 
tagggaccg aagtacccg gaaacacat gtgtcacgt 
gtttcgttg cgacatgcc tgcccgcac tattgccaa 
tactttaag agacatttg taaaaaaat aatgataga 
acgaagttt gcaacagaa tttagctaa accaatcga 
tatcaacgg tcggacgtt agctacgcg acctacaaa 
cctaccaac tgaacatcg acgattaac tcgtaacgg 
ccagtcttt agttaccca gtcgtttcc cactcctat 
ggaagaacc aaagaaagt acttagggc tcaatattt 
gggcaccac tcaagtctc acaagccac tggaatgga 
agttttgaa cgaggctat tgacagact tgtggcgac 
tgtccctcc agagcagtg gcagtgtgt taacgtagc 
tgtggctcc gtctatgat atcaatcca atgtccaag 
tgacgatag gctgatagc ggaatgccg cgtccgcta 
cttgtcctt cttaggcat aggaaaaat tatcaaaca 
ctgtgcttt cgtaatgca tacggcaca ggacacttt 
tgttgcaca tgtgtttta ctgcgaacc gtcttctgg 
tgccctttg taagacaat tgaggcggc ttgcaagtt 
gagatacca gaagtgtct cgacgcgca ccctcaagg 
tctcgaacg aaacaattc aaacctcca cactcctgg 
aaaaagtat tggagcggc gttgaaatc aatcgttgg 
gtctttaac cggacggaa aagtaggag tagtgattc 
ttgagatac ggtaaaatc tctgcaggt acttgttgt 
aggttgtaa gatggctta gaagtaaag tgatttttt 
aaggaattg tgtctcttg cctgtggag cgcgaggta 
atcaaacac agacatctg caatctcct ctaacccag 
aaatacatt acttcaact tcttcggcg gatcttcgt 
tctctgttg tctcctgtg ttggatgat ttgaagcac 
attagctgg gattcggct cgttaagct ggttaacaa 
taaaactgt acaaaattt gtgttaaga ctcgatagt 
atcacgtgg tgtttgtca caatgcact aactaacaa 
gacgcttct aaatatgat agattagga cacaagcac 
ttcttgtga gcctcagtt aggtagtct gcaacgaga 
tggtctctc atatttaga gttagttac tctgcctct 
atatgtttt agctgtcgt aaggtgatc aacggtgtt 
actttaacg cttcatcaa ggtgtaaat atgtagtca 
aaagtgtct tggtgtttt gggggttgg tcactttat 
actggtact tgtagcttg cttcaagcc tcggcaaca 
aatcacaac aacacccag ctaaagaca atattacat 
taaggtttt acaaaattg taaaaaatc aaaagggcg 
ggaggattg tctttacac gtgcgatct tagttaaga 
aatgcaatg tttatgtaa atactaata agcctttca 
tgttcttag gtcagtacg ttttatatt ttttccggc 
tttggtgta cgaattgag agacgtgca atcttgcca 
ttgctattc tttcctcag ttgtcgttt atctattgt 
atgccttta cgcaaagat atttgttta ctacaatat 
ttttataaa aaatgaatg tatgcaatg atcgtagtc 
tgcaaccga ttgtttcac tcaccgttt cgttggtcg 
cttgtaatg taaatatgc cagacttgt agtttcaag 
aacagttaa tgtaaaatt tccttatta acaacaatt 
gtccaataa attgcatac tcttat

    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