Status
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Gene information
General information
TC034625 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: 23527402..23536070
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
    		TC034625
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_07057

    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: 1 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with muscle fluorescence/pattern, but not hatched (pot. late embryonic lethality) - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: Decreased fluorescence included
    larval musculature fluorescence decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     vertex triplet seta partially not present - Penetrance (percentage of animals/eggs on slide): more than 80%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    head appendages orientation irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    antenna partially not present - Penetrance (percentage of animals/eggs on slide): less than 30%
    antenna partially shape thinner - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    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
    • >TC034625 RA
      MVTRVGPKK DPTLCLNAC RYLREYCET CNIHGVHYL 
TERRPKAEK IFWFLTLLL SISGCSFMI HEIWIKYQK 
NPIVVSFAN EVKSLYEIP FPAVTVCPE SKCSQSKFN 
YSRVYGKLL NNESLSHFE SHAFFYLRM VCKNLGNEF 
PNLLVNKTV GDDFFLLIE ELKPNIELS CSFLEHFTC 
DESSYTPII TDVGICYSM NMLEKSEIF RPNVIYDEK 
LNFTKSNYS SGFDGETGF TESAGVHSY PYRAFKSGV 
DNSLDLVLV DQVDYDEKC SAVQGYRLL IHRPQDIPR 
MSKNYIRVS HDKETTVAI EPALILTSP EVKNINPKK 
RRCYLKGEK VLKYFLVYS QSNCQLECY TNFTMKTCG 
CVFYFMPRE GETPVCGAG SYNCLELVK VQFKLEEVK 
IKRSDPSEY ACGCRPSCN NLHYNVEVS QTDVSYQTF 
SENVDRNAS EKRRYAQVK IYFKHDEFM SLERKELYV 
FLQLELAVN CSVVESSSN SAMSSDNTN SDIIPTRNY 
TSSGEYGNW WLLKRISKD SDRLQGDPW LLSKQEFRM 
RKSWLSRSP KAAFRIQYG NSNEIGAFI RLTNSYCLM 
GGEPQQYEK IQRIIQSDL GEIPAINTS LAGCKVVGR 
LCVGNKNGL LVPELTYDT ELQRLKEEL PESLKISKI 
EDKLSALGN VIVCNDSVA LIHPDLDRE TEEVIADTL 
QVEVFRHMI SNNPLVGSH CTLNNLGGL VNSDIGQNE 
LENLSSLLQ LSLVVTWNC KSREQTYWL WCSM
    CDS sequence
    • >TC034625 RA
      atggttacc cgtgtgggc cccaaaaag gaccccact 
ctatgtctt aacgcttgc agatatttg cgtgaatat 
tgtgaaaca tgtaacata catggcgtt cattattta 
actgaaaga agaccaaaa gccgaaaag atattttgg 
ttcctcaca ctgttatta tccataagt ggctgtagt 
tttatgatt cacgaaatt tggatcaag taccaaaaa 
aatccgatc gttgtcagt tttgcaaac gaagtcaag 
tctttatac gaaatacct tttccggca gtcactgtc 
tgtccggaa tcaaagtgt tcacaatcg aagtttaat 
tacagccgt gtttatgga aagttgctc aataatgaa 
tccctttca cactttgaa tctcatgct tttttttac 
ttacgaatg gtttgtaag aatttggga aacgaattt 
cccaactta ctagtgaat aaaacggtc ggtgacgat 
ttttttcta cttatagag gagttaaag cccaacatc 
gaactaagt tgctcgttc ttggaacat tttacctgt 
gatgaaagt agttacact ccaatcatt acagatgta 
ggaatctgc tattccatg aacatgttg gaaaaatcg 
gaaattttc cgccccaat gtaatctat gacgaaaag 
ttaaatttt accaagtcc aattattcc agtggattt 
gatggtgaa actggattt acagaaagt gcaggagtg 
cacagttat ccttacaga gctttcaaa tcaggtgtt 
gataactca ttagactta gtgttagtt gatcaagta 
gattatgac gaaaagtgt tcagctgtg caaggatat 
cgtttgtta attcatagg cctcaagat attcctcga 
atgtcgaaa aattatatc agagtgtca cacgataag 
gaaacaacc gtcgctata gaacctgca ctcatttta 
acatctccc gaggtgaaa aacattaat ccaaaaaaa 
cgaaggtgt tacttgaaa ggtgaaaag gttttgaag 
tattttttg gtctacagc cagtcaaat tgccaactg 
gaatgttac acgaatttt accatgaaa acatgtgga 
tgtgtgttc tattttatg cctagggag ggcgagact 
cctgtttgt ggtgctgga agttataac tgcttagaa 
ctcgttaaa gtgcaattc aaactcgaa gaagtgaaa 
ataaagaga tcagatccg agcgaatat gcatgtggt 
tgtaggccg tcttgtaat aatttacat tacaatgtg 
gaagtgtct cagacagat gtttcatat caaacattt 
tcagagaat gttgataga aatgccagt gaaaaacga 
agatatgca caagtaaaa atttacttc aaacacgac 
gaatttatg tcacttgaa cgaaaagaa ctctacgtt 
tttttacaa ctcgaactg gctgtgaac tgtagtgta 
gtggaatcc tcttcaaat tctgcaatg tccagtgat 
aatacaaat agtgatatt attcctaca cgtaattac 
accagcagt ggagaatat gggaactgg tggctatta 
aaaagaata tcaaaagat tcggaccgt ttacagggc 
gacccatgg ttactatca aaacaagaa ttcagaatg 
cgtaaaagt tggctctcg agatcaccc aaagcagcg 
tttcgaata caatacggg aatagtaat gaaattggt 
gcttttata agattaaca aattcatat tgtctcatg 
ggtggtgag ccccaacag tacgaaaaa atacaaaga 
attattcaa agtgacctc ggcgagatt cctgcgatt 
aacacttcc ttggctggg tgtaaagta gtaggacga 
ttatgtgta ggcaataaa aatggactt ttggtgcct 
gaactgacc tacgatacg gaattacaa cgactaaaa 
gaagaactc cctgagtct ttaaaaata tcaaagatt 
gaagataaa ttgtcggcc ttaggcaat gtgattgtt 
tgcaatgat agtgtcgca cttattcac ccagatttg 
gaccgagaa actgaagaa gtgatagca gatacctta 
caagttgaa gtttttcgc catatgata tccaacaat 
cccttagta ggttcgcat tgtacttta aataattta 
ggaggatta gtgaattcg gatattggt caaaacgaa 
ctcgaaaat ttatcgtcg ctgttacag ttatcctta 
gttgtaacc tggaactgt aaatcaagg gaacaaact 
tattggctc tggtgtagt atgtag
    mRNA sequence
    • >TC034625 RA
      gttccagaa tttgcttta ctaaattaa aggaactaa 
agaatgaag taaaaatgg ttacccgtg tgggcccca 
aaaaggacc ccactctat gtcttaacg cttgcagat 
atttgcgtg aatattgtg aaacatgta acatacatg 
gcgttcatt atttaactg aaagaagac caaaagccg 
aaaagatat tttggttcc tcacactgt tattatcca 
taagtggct gtagtttta tgattcacg aaatttgga 
tcaagtacc aaaaaaatc cgatcgttg tcagttttg 
caaacgaag tcaagtctt tatacgaaa taccttttc 
cggcagtca ctgtctgtc cggaatcaa agtgttcac 
aatcgaagt ttaattaca gccgtgttt atggaaagt 
tgctcaata atgaatccc tttcacact ttgaatctc 
atgcttttt tttacttac gaatggttt gtaagaatt 
tgggaaacg aatttccca acttactag tgaataaaa 
cggtcggtg acgattttt ttctactta tagaggagt 
taaagccca acatcgaac taagttgct cgttcttgg 
aacatttta cctgtgatg aaagtagtt acactccaa 
tcattacag atgtaggaa tctgctatt ccatgaaca 
tgttggaaa aatcggaaa ttttccgcc ccaatgtaa 
tctatgacg aaaagttaa attttacca agtccaatt 
attccagtg gatttgatg gtgaaactg gatttacag 
aaagtgcag gagtgcaca gttatcctt acagagctt 
tcaaatcag gtgttgata actcattag acttagtgt 
tagttgatc aagtagatt atgacgaaa agtgttcag 
ctgtgcaag gatatcgtt tgttaattc ataggcctc 
aagatattc ctcgaatgt cgaaaaatt atatcagag 
tgtcacacg ataaggaaa caaccgtcg ctatagaac 
ctgcactca ttttaacat ctcccgagg tgaaaaaca 
ttaatccaa aaaaacgaa ggtgttact tgaaaggtg 
aaaaggttt tgaagtatt ttttggtct acagccagt 
caaattgcc aactggaat gttacacga attttacca 
tgaaaacat gtggatgtg tgttctatt ttatgccta 
gggagggcg agactcctg tttgtggtg ctggaagtt 
ataactgct tagaactcg ttaaagtgc aattcaaac 
tcgaagaag tgaaaataa agagatcag atccgagcg 
aatatgcat gtggttgta ggccgtctt gtaataatt 
tacattaca atgtggaag tgtctcaga cagatgttt 
catatcaaa cattttcag agaatgttg atagaaatg 
ccagtgaaa aacgaagat atgcacaag taaaaattt 
acttcaaac acgacgaat ttatgtcac ttgaacgaa 
aagaactct acgtttttt tacaactcg aactggctg 
tgaactgta gtgtagtgg aatcctctt caaattctg 
caatgtcca gtgataata caaatagtg atattattc 
ctacacgta attacacca gcagtggag aatatggga 
actggtggc tattaaaaa gaatatcaa aagattcgg 
accgtttac agggcgacc catggttac tatcaaaac 
aagaattca gaatgcgta aaagttggc tctcgagat 
cacccaaag cagcgtttc gaatacaat acgggaata 
gtaatgaaa ttggtgctt ttataagat taacaaatt 
catattgtc tcatgggtg gtgagcccc aacagtacg 
aaaaaatac aaagaatta ttcaaagtg acctcggcg 
agattcctg cgattaaca cttccttgg ctgggtgta 
aagtagtag gacgattat gtgtaggca ataaaaatg 
gacttttgg tgcctgaac tgacctacg atacggaat 
tacaacgac taaaagaag aactccctg agtctttaa 
aaatatcaa agattgaag ataaattgt cggccttag 
gcaatgtga ttgtttgca atgatagtg tcgcactta 
ttcacccag atttggacc gagaaactg aagaagtga 
tagcagata ccttacaag ttgaagttt ttcgccata 
tgatatcca acaatccct tagtaggtt cgcattgta 
ctttaaata atttaggag gattagtga attcggata 
ttggtcaaa acgaactcg aaaatttat cgtcgctgt 
tacagttat ccttagttg taacctgga actgtaaat 
caagggaac aaacttatt ggctctggt gtagtatgt 
agtgacagt tttgcatat gctggcatg aaaactact 
gctagagaa tttactgac attgagaat gcatttcta 
ttaaaaata aattaaatt aaaccga

    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