Status
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Gene information
General information
TC000642 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_007417.3: 8601251..8607435
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
    		TC000642
    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
    {{ 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_00149

    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: 40.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (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: % (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
    • >TC000642 RA
      MHCKQIKLG DVWRTCNKI RAAVFRTNL NLWEYFCHL 
DPNKNSIIS ESQFISVFT GHLQAIIGL SDQEISELA 
DYFRIQDGR ILYTQLCEV IYDSVPDFS QNAPLVTGL 
EWEDPLHVN RLSISEERR LNLLLTKIA CVVNMRNLL 
LRPYFQDYE LISKNNGTV TIGHFARVL DYLKILVSP 
DDFTLLLKK YLKDSYTVN YVAFIAAID EIVKYLDQH 
GVMDLSGDV LSLFPGRII NAELPKLPR PEIGKQLAA 
SIFGKQSIF HSALNEPKQ TQDLVATIK RIQRHVLEN 
RLRVSEFFK DFDALNSGR LTVSQFHRG LDMLGISGI 
QRLYLSLPE IEAIMIQYR DPCDPTRVC WKTFEDDID 
QVFTTKELE KYPCLCVDA PPREIVELP RMGGKDWQK 
VNPASRELC EEAVDKVKQ RVTKRRIML KPSFRDYDK 
HNNGYVSRS QMRQCLLSN GILLSDEEL YALEERFNN 
EVGFNYFWF LREVEPKSC EDRCPGAIH HEVCGEEYV 
KKPVPRAEQ DIVLIMAKI KGKVVRERI RVMEFLRDF 
DKCNQSVIS REDFKRGLS VCRFDLTEN EMETLMEVF 
ASPLRRECV DYRRFSDVV EEAFTQQSL ERAPLIVPL 
QHIPTRDGE RNFLNFDER VLLSSAMNK LSKKPEMEL 
NLIQIFQDY DKTNCGTVS GEHFERALS LRGLLNIIT 
RQEFDAVCK CFSFERGLR DEIDYRAFI KGLNILYNI 
NKYKPF
    CDS sequence
    • >TC000642 RA
      atgcattgc aaacaaata aaattaggt gatgtctgg 
cgcacttgt aataaaatc cgcgcagcg gtctttcgg 
acaaatcta aatctttgg gagtacttc tgtcatctc 
gacccgaac aaaaattcc ataatttct gagtcacag 
tttatttca gttttcacc ggtcatttg caggcgatt 
attggtctc tcggaccaa gaaatttca gaacttgcg 
gattatttc agaattcag gatggtcgt atcctgtat 
acgcaactg tgcgaagtt atttatgac agcgtgcct 
gatttttca caaaatgcc cccttagtc actggtctt 
gagtgggaa gaccctctc catgtaaac cgactgagc 
ataagtgaa gaaagacgc ttgaatctt cttctaact 
aaaattgca tgtgttgtg aacatgaga aatttgctg 
ctgaggccg tatttccaa gactacgaa cttatttct 
aaaaacaac ggaactgta acaatcggt catttcgct 
cgagttttg gactattta aaaattcta gtctcgcca 
gacgacttt actctctta ttgaaaaaa tacctgaag 
gacagttac acagtaaat tatgtcgca tttattgcg 
gcaatcgac gagattgta aaatacctg gaccagcac 
ggcgtcatg gacctgagt ggcgacgtc ctgagccta 
tttccggga agaataatc aacgcagaa ctgcccaaa 
ctgccgcga cccgaaatc ggcaaacaa ctagctgcg 
agcattttc ggcaaacaa agcatcttt cattccgcg 
ttaaacgaa ccgaaacaa acgcaagac ttggtcgct 
acaattaaa cgaattcaa agacacgtt ttggaaaat 
agattacgg gtgtcggaa tttttcaaa gactttgat 
gcgctaaat agtggacgc ttgaccgtg tcgcagttc 
caccgaggg ctggacatg ctggggatc agtggtatc 
cagagactt tacttgtct ttgcctgaa attgaggcc 
ataatgata caatatcgc gacccctgt gaccccact 
cgagtgtgt tggaagacg tttgaagac gatattgac 
caggttttc actaccaaa gagctggag aagtatccg 
tgtttgtgc gtggatgcg cccccgcgt gaaattgtc 
gagttgccc agaatgggg ggcaaagac tggcaaaaa 
gtaaatccc gcctccaga gaattgtgc gaagaagcg 
gttgataaa gtcaagcaa agagttacg aaaagacga 
atcatgtta aaaccatcc tttagggac tatgacaag 
cacaacaat ggttacgtt tcgcgttcg caaatgcgc 
cagtgttta ctgtctaat ggtattctc ttgtccgat 
gaagagttg tatgctttg gaagagcgt tttaataac 
gaggttggt ttcaactac ttctggttt ctgagggag 
gttgagccg aagagttgc gaggaccgc tgtcctggt 
gccatccac cacgaggtc tgtggcgaa gaatacgtg 
aaaaagccc gtgcctcgg gccgagcaa gacattgtc 
ctgattatg gccaaaatc aagggcaag gttgtgcgt 
gagcgaatc cgagtgatg gagtttttg cgtgatttt 
gacaagtgc aaccaaagt gttatttct cgtgaagat 
ttcaagcgg ggtttgtcg gtttgtcgc ttcgatttg 
accgaaaac gagatggaa acgctgatg gaagttttt 
gcctcgcct ttgaggcgc gaatgtgtg gactatcgc 
cggttttcg gacgtggtt gaggaggct ttcactcag 
caaagcctg gagcgtgct cctttaatc gtccccctg 
cagcatatc ccgaccagg gacggcgaa cggaatttc 
ctcaatttc gacgaaaga gtgctgctg tccagcgca 
atgaataag ctatcgaaa aagcccgaa atggagctc 
aatttgatt caaatcttc caggattat gacaagacc 
aactgtggg acggtttcg ggcgagcac ttcgaaagg 
gcgctgtcg ctgcggggc cttcttaac atcatcacg 
agacaggaa ttcgacgct gtttgcaaa tgcttcagt 
ttcgagagg gggctgcgg gacgagatc gactaccgg 
gcgttcatt aaggggctc aacatcctc tacaatata 
aataaatac aaacctttc tga
    mRNA sequence
    • >TC000642 RA
      tagtgtgca gcaaaaatg cattgcaaa caaataaaa 
ttaggtgat gtctggcgc acttgtaat aaaatccgc 
gcagcggtc tttcggaca aatctaaat ctttgggag 
tacttctgt catctcgac ccgaacaaa aattccata 
atttctgag tcacagttt atttcagtt ttcaccggt 
catttgcag gcgattatt ggtctctcg gaccaagaa 
atttcagaa cttgcggat tatttcaga attcaggat 
ggtcgtatc ctgtatacg caactgtgc gaagttatt 
tatgacagc gtgcctgat ttttcacaa aatgccccc 
ttagtcact ggtcttgag tgggaagac cctctccat 
gtaaaccga ctgagcata agtgaagaa agacgcttg 
aatcttctt ctaactaaa attgcatgt gttgtgaac 
atgagaaat ttgctgctg aggccgtat ttccaagac 
tacgaactt atttctaaa aacaacgga actgtaaca 
atcggtcat ttcgctcga gttttggac tatttaaaa 
attctagtc tcgccagac gactttact ctcttattg 
aaaaaatac ctgaaggac agttacaca gtaaattat 
gtcgcattt attgcggca atcgacgag attgtaaaa 
tacctggac cagcacggc gtcatggac ctgagtggc 
gacgtcctg agcctattt ccgggaaga ataatcaac 
gcagaactg cccaaactg ccgcgaccc gaaatcggc 
aaacaacta gctgcgagc attttcggc aaacaaagc 
atctttcat tccgcgtta aacgaaccg aaacaaacg 
caagacttg gtcgctaca attaaacga attcaaaga 
cacgttttg gaaaataga ttacgggtg tcggaattt 
ttcaaagac tttgatgcg ctaaatagt ggacgcttg 
accgtgtcg cagttccac cgagggctg gacatgctg 
gggatcagt ggtatccag agactttac ttgtctttg 
cctgaaatt gaggccata atgatacaa tatcgcgac 
ccctgtgac cccactcga gtgtgttgg aagacgttt 
gaagacgat attgaccag gttttcact accaaagag 
ctggagaag tatccgtgt ttgtgcgtg gatgcgccc 
ccgcgtgaa attgtcgag ttgcccaga atggggggc 
aaagactgg caaaaagta aatcccgcc tccagagaa 
ttgtgcgaa gaagcggtt gataaagtc aagcaaaga 
gttacgaaa agacgaatc atgttaaaa ccatccttt 
agggactat gacaagcac aacaatggt tacgtttcg 
cgttcgcaa atgcgccag tgtttactg tctaatggt 
attctcttg tccgatgaa gagttgtat gctttggaa 
gagcgtttt aataacgag gttggtttc aactacttc 
tggtttctg agggaggtt gagccgaag agttgcgag 
gaccgctgt cctggtgcc atccaccac gaggtctgt 
ggcgaagaa tacgtgaaa aagcccgtg cctcgggcc 
gagcaagac attgtcctg attatggcc aaaatcaag 
ggcaaggtt gtgcgtgag cgaatccga gtgatggag 
tttttgcgt gattttgac aagtgcaac caaagtgtt 
atttctcgt gaagatttc aagcggggt ttgtcggtt 
tgtcgcttc gatttgacc gaaaacgag atggaaacg 
ctgatggaa gtttttgcc tcgcctttg aggcgcgaa 
tgtgtggac tatcgccgg ttttcggac gtggttgag 
gaggctttc actcagcaa agcctggag cgtgctcct 
ttaatcgtc cccctgcag catatcccg accagggac 
ggcgaacgg aatttcctc aatttcgac gaaagagtg 
ctgctgtcc agcgcaatg aataagcta tcgaaaaag 
cccgaaatg gagctcaat ttgattcaa atcttccag 
gattatgac aagaccaac tgtgggacg gtttcgggc 
gagcacttc gaaagggcg ctgtcgctg cggggcctt 
cttaacatc atcacgaga caggaattc gacgctgtt 
tgcaaatgc ttcagtttc gagaggggg ctgcgggac 
gagatcgac taccgggcg ttcattaag gggctcaac 
atcctctac aatataaat aaatacaaa cctttctga 
aaatatcgc gggcaaata tattgatat tattcgatt 
ttgtggctg attattccg tttggttgt tttccgatg 
gcgtcattg taagtgatt tgtcccggg agaggtgtg 
caagccgtt cgttgggtc ttgatgcaa taaatgaac 
caaattaga

    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