Status
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Gene information
General information
TC004675 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_007416.3: 150161..153696
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
    TC004675
    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
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    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_00750

    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)

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    Fertility
    mature egg not present - Number of animals showing the phenotype: 2
    vitellarium size increased - Number of animals showing the phenotype: 2

    vitellarium degenerated - Number of animals showing the phenotype: 2
    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
    • >TC004675 RA
      MGDTKEENP KKEEKPTEE DKNELSEED KQLQEELNL 
      CVETLQEND ENLYLPALQ ALGNHIRAS TTSMTSVPK 
      PLKFMKPHY GTMKNVYEK IRDPNVKSV CADVISVLA 
      MTMGEGREC LKYRLSSKL DGIGEWGHE YVRHLAGEI 
      AAEWAETDV CEDKDKDVL IELAKQIVP YNMSHNAEA 
      EACDLLMEI ERLDLLEVY VDENTYPRV CLYLISCVP 
      YVADPENTT LLQTALLLF RNFEQYPQA LRLAMQLND 
      HNLIEEIFT SCPDSTVQK QLAFMLGRQ QIYIEIPES 
      TPEYEDLVE IMANCHLNN HFLNLAREL DIMEPKTPE 
      DVYKSHLEN TRPQFGSNQ VDSARQNLA ASFVNGFVN 
      AAFGQDKLL MEDGNKWLY KNKEHGMLS ATASLGLVL 
      LWDVDGGLT PIDKYLYSS EDHIKSGAL LACGIVNCG 
      VRNECDPAL ALLSDYVLH NTNTMRIGA IVGLGLAYV 
      GSNREAVLS LLTPVFSDS KSNMEVIGM AALACGMIA 
      VGSGNSQIT TAIMQTLME KSEADLKDT YARFLPLGL 
      GLCHLGKQE GIETIIAAL EVIPEPFKS MAVTMVDIC 
      AYAGTGNVL KVQHLLHIC SEHYEPADK DESRDKNKD 
      KSKEKEDKE KDLSARQAV AVLGIALIS MGEDIGSDM 
      AFRTFGHLL RYCEPVIRR AVPLALGLI SVSNPKLSI 
      LDTLSKFSH DSDAEVAHN AIFAMGLVG AGTNNARLA 
      AMLRQLAQF HAKDPNNLF MVRIAQGLT HLGKGTLTL 
      SPYHSDRQL MSPVAVAGL MATLVGFLD VKNIILGKS 
      HYLLYTLAA AMQPRMLVT FDEDLNPLP VPVRVGLAV 
      DVVGQAGKP KTITGFQTH TTPVLLAHG ERAELATEE 
      YIALTPIME GFVILRKNP DFYPS
    CDS sequence
    • >TC004675 RA
      atgggtgat acgaaagaa gaaaacccg aaaaaagaa 
      gaaaaaccc accgaagaa gataaaaat gagctgtcc 
      gaagaagac aagcaactg caggaggaa ttgaatttg 
      tgcgtcgag actttacag gaaaatgac gagaatctg 
      tacctccca gcgctccag gccctcggt aaccacatc 
      cgggcctcc accacatcc atgacctcg gtccccaaa 
      cccctcaaa tttatgaaa ccccactac ggcaccatg 
      aaaaacgtc tacgagaaa atccgtgac cctaacgtg 
      aaaagcgtt tgtgctgac gttatctcc gtcctggcc 
      atgacaatg ggcgaaggg cgcgagtgt ctcaaatac 
      cgcctctcg tcgaagctg gacggtatc ggcgaatgg 
      gggcacgaa tacgtgcgt catctcgct ggggaaatc 
      gccgcagaa tgggcagag accgacgtt tgcgaggac 
      aaagacaag gacgttttg atcgagttg gccaaacag 
      atcgtcccg tacaacatg tcgcacaat gcagaggcc 
      gaggcctgc gatttgttg atggaaatt gagagacta 
      gacttgttg gaggtctac gttgacgaa aatacttat 
      ccgagggtt tgcttgtat ttgatcagt tgtgtcccg 
      tatgttgcc gatcctgag aacacgact ttgctacaa 
      acggcgctg cttttgttc cgcaacttc gaacagtat 
      ccgcaagct ctgagactc gcaatgcaa ctcaacgat 
      cacaattta atcgaagaa attttcacg tcatgtcct 
      gactctacg gttcagaaa caactagct ttcatgctc 
      ggccggcaa cagatttac atcgagatt cccgagagc 
      acacccgaa tacgaggat ttggtcgaa ataatggcc 
      aattgtcac ttaaacaac cacttttta aatttggct 
      cgagagctc gatatcatg gagcctaaa acaccggaa 
      gatgtttac aaatcgcat ttggaaaac acacgacct 
      cagtttggc tcaaatcag gtcgattca gcccgacag 
      aatctcgcc gctagtttc gtcaatggt ttcgtcaac 
      gctgccttc ggccaagat aaactccta atggaagat 
      ggaaataag tggttgtac aagaacaaa gagcacggc 
      atgttgagc gccaccgcg tcccttggg ttggtgcta 
      ctgtgggac gtggacggg gggttaacc cccattgac 
      aagtacttg tactcgtct gaggaccac attaaatcc 
      ggggcttta ctcgcttgt gggattgtt aattgtggg 
      gttcggaat gagtgtgat cctgcatta gcactatta 
      tcggactat gtactacat aacactaat accatgagg 
      attggggct atagtgggg cttgggtta gcatatgtg 
      ggctcaaac cgcgaggct gttttgagt ctgctaacc 
      ccagttttc tccgactcg aaatccaac atggaggtt 
      ataggcatg gcggctttg gcatgcggt atgatcgct 
      gtaggttca ggcaatagt caaataacc acagctata 
      atgcaaaca ctgatggag aagtcggag gccgatttg 
      aaagacacc tacgctagg tttttgccc ctggggctc 
      ggcctgtgc catttgggc aaacaggag ggtattgag 
      accataatt gcagccttg gaggtgatc ccagaaccg 
      ttcaaatcc atggctgtg accatggtc gacatctgc 
      gcctatgcc gggaccgga aacgtgctc aaagtccag 
      catttgctc cacatctgc tccgagcac tacgaaccg 
      gccgataaa gacgaaagt cgcgataaa aataaagac 
      aagagtaag gaaaaagaa gacaaggag aaagaccta 
      tcggcgaga caagccgtg gccgtgctg ggcatagcc 
      ctgattagc atgggtgag gacattggg agtgacatg 
      gcgttccga accttcggc cacttgtta cgctactgc 
      gagcccgtg attcggcgc gcggtgcct ttggctctt 
      gggcttata tctgtatca aaccccaaa ctgagtatt 
      ctagacacc ttgagcaaa ttctcacac gatagtgac 
      gccgaagtc gcccataac gccatcttc gcgatgggc 
      ctagtcggc gctggaacc aacaacgca cggttggcg 
      gcaatgctg cgccagttg gcgcaattc cacgccaaa 
      gaccccaac aatctattc atggtgcga attgcacaa 
      gggttgact catttaggc aagggaacg ttgacgttg 
      agtccgtac cacagcgac cgacagttg atgagtcca 
      gtggccgtc gccggtctg atggcgaca ctggttggt 
      ttccttgat gtgaaaaac atcattctc ggcaaatct 
      cactatctg ttgtacacc cttgccgcg gcgatgcag 
      ccccgcatg ttggtaaca tttgatgag gatcttaac 
      ccgcttccg gtgcccgtg cgagtgggt cttgccgtt 
      gatgttgtg ggacaggcc gggaaaccc aaaactatc 
      accgggttc caaacgcat acaacgccc gtgttgtta 
      gcgcacggt gaaagggca gagttggca accgaggag 
      tatatcgcg cttacgccc atcatggaa ggatttgtg 
      attcttagg aaaaatccc gatttttac ccctcttaa
    mRNA sequence
    • >TC004675 RA
      caatttatt tgaaaattt tgaaactta taattagct 
      acgttggcg aacctgacg tcacgtgac ccaaagtgt 
      aatgactgg cacaatacg ttatatttc ggctatttt 
      cttgaatta gtgttttta gtgaattac actcagtat 
      ttagcagcg gtttaactt aaagttttt acgatgggt 
      gatacgaaa gaagaaaac ccgaaaaaa gaagaaaaa 
      cccaccgaa gaagataaa aatgagctg tccgaagaa 
      gacaagcaa ctgcaggag gaattgaat ttgtgcgtc 
      gagacttta caggaaaat gacgagaat ctgtacctc 
      ccagcgctc caggccctc ggtaaccac atccgggcc 
      tccaccaca tccatgacc tcggtcccc aaacccctc 
      aaatttatg aaaccccac tacggcacc atgaaaaac 
      gtctacgag aaaatccgt gaccctaac gtgaaaagc 
      gtttgtgct gacgttatc tccgtcctg gccatgaca 
      atgggcgaa gggcgcgag tgtctcaaa taccgcctc 
      tcgtcgaag ctggacggt atcggcgaa tgggggcac 
      gaatacgtg cgtcatctc gctggggaa atcgccgca 
      gaatgggca gagaccgac gtttgcgag gacaaagac 
      aaggacgtt ttgatcgag ttggccaaa cagatcgtc 
      ccgtacaac atgtcgcac aatgcagag gccgaggcc 
      tgcgatttg ttgatggaa attgagaga ctagacttg 
      ttggaggtc tacgttgac gaaaatact tatccgagg 
      gtttgcttg tatttgatc agttgtgtc ccgtatgtt 
      gccgatcct gagaacacg actttgcta caaacggcg 
      ctgcttttg ttccgcaac ttcgaacag tatccgcaa 
      gctctgaga ctcgcaatg caactcaac gatcacaat 
      ttaatcgaa gaaattttc acgtcatgt cctgactct 
      acggttcag aaacaacta gctttcatg ctcggccgg 
      caacagatt tacatcgag attcccgag agcacaccc 
      gaatacgag gatttggtc gaaataatg gccaattgt 
      cacttaaac aaccacttt ttaaatttg gctcgagag 
      ctcgatatc atggagcct aaaacaccg gaagatgtt 
      tacaaatcg catttggaa aacacacga cctcagttt 
      ggctcaaat caggtcgat tcagcccga cagaatctc 
      gccgctagt ttcgtcaat ggtttcgtc aacgctgcc 
      ttcggccaa gataaactc ctaatggaa gatggaaat 
      aagtggttg tacaagaac aaagagcac ggcatgttg 
      agcgccacc gcgtccctt gggttggtg ctactgtgg 
      gacgtggac ggggggtta acccccatt gacaagtac 
      ttgtactcg tctgaggac cacattaaa tccggggct 
      ttactcgct tgtgggatt gttaattgt ggggttcgg 
      aatgagtgt gatcctgca ttagcacta ttatcggac 
      tatgtacta cataacact aataccatg aggattggg 
      gctatagtg gggcttggg ttagcatat gtgggctca 
      aaccgcgag gctgttttg agtctgcta accccagtt 
      ttctccgac tcgaaatcc aacatggag gttataggc 
      atggcggct ttggcatgc ggtatgatc gctgtaggt 
      tcaggcaat agtcaaata accacagct ataatgcaa 
      acactgatg gagaagtcg gaggccgat ttgaaagac 
      acctacgct aggtttttg cccctgggg ctcggcctg 
      tgccatttg ggcaaacag gagggtatt gagaccata 
      attgcagcc ttggaggtg atcccagaa ccgttcaaa 
      tccatggct gtgaccatg gtcgacatc tgcgcctat 
      gccgggacc ggaaacgtg ctcaaagtc cagcatttg 
      ctccacatc tgctccgag cactacgaa ccggccgat 
      aaagacgaa agtcgcgat aaaaataaa gacaagagt 
      aaggaaaaa gaagacaag gagaaagac ctatcggcg 
      agacaagcc gtggccgtg ctgggcata gccctgatt 
      agcatgggt gaggacatt gggagtgac atggcgttc 
      cgaaccttc ggccacttg ttacgctac tgcgagccc 
      gtgattcgg cgcgcggtg cctttggct cttgggctt 
      atatctgta tcaaacccc aaactgagt attctagac 
      accttgagc aaattctca cacgatagt gacgccgaa 
      gtcgcccat aacgccatc ttcgcgatg ggcctagtc 
      ggcgctgga accaacaac gcacggttg gcggcaatg 
      ctgcgccag ttggcgcaa ttccacgcc aaagacccc 
      aacaatcta ttcatggtg cgaattgca caagggttg 
      actcattta ggcaaggga acgttgacg ttgagtccg 
      taccacagc gaccgacag ttgatgagt ccagtggcc 
      gtcgccggt ctgatggcg acactggtt ggtttcctt 
      gatgtgaaa aacatcatt ctcggcaaa tctcactat 
      ctgttgtac acccttgcc gcggcgatg cagccccgc 
      atgttggta acatttgat gaggatctt aacccgctt 
      ccggtgccc gtgcgagtg ggtcttgcc gttgatgtt 
      gtgggacag gccgggaaa cccaaaact atcaccggg 
      ttccaaacg catacaacg cccgtgttg ttagcgcac 
      ggtgaaagg gcagagttg gcaaccgag gagtatatc 
      gcgcttacg cccatcatg gaaggattt gtgattctt 
      aggaaaaat cccgatttt tacccctct taaatattt 
      agctattta acagttttg tctatgttt tgtatccag 
      ttcatttaa gttaataaa aaattatgt tctac
    The data is licensed under a Creative Commons Attribution 3.0 Unported License. (CC-BY) CC-BY