Status
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Gene information
General information
TC003250 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: 392640..395442
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
    TC003250
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
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      Status: {{ goTerm.status }}
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      Quotation: {{ goTerm.quotation }}
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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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00540

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection


    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 3
    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 20 embryo/egg not developed/not fertilized - 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
    egg without cuticle 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: 20.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection


    adult lethality - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection


    remarks: animals lost, adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 3 (22 dpi)
    Days post injection


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


    Pupal morphology
    remarks: animals lost,
    Adult morphology
    motility decreased - (19 dpi)
    Days post injection


    remarks: animals lost,
    Fertility
    egg production: number no/almost no eggs -
    iBeetle screen iB_00540

    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: % (includes death as pupa, adult)

    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
    • >TC003250 RA
      MSLTQCLED ANNQSLLWK QIFSALFYG IASFMITVV 
      NKTVLTTYQ FPSFQVLGI GQMIATILV LLIAKKSRV 
      VTFPSFELN TFGKIFPLP LIYIGNMIF GLGGTKQLS 
      LPMFTALRR FSILLTMIL ELYILGIRP SFSVQFSVY 
      TMIVGAVVA ASNDIAFNL QGYIYVLLN DFFTATNGV 
      YMKKKLDSK ELGKYGLMF YNSLFMIIP AVFFAFYTG 
      DLDSAYNYK YWNDALFLT QFFMSCIMG FVLSYSVVL 
      CTYYNSALT TTIIGCLKN ICVTYLGMV IGGDYIFSW 
      VNFVGINIS VVGSLIYTY VTFKRKDAA PTYVPLVNE 
      KATKLDNVV
    CDS sequence
    • >TC003250 RA
      atgtccttg actcagtgc ctggaggac gcaaacaac 
      cagtcccta ctatggaag caaatcttc tcggccctt 
      ttctacggc atcgcctcg tttatgatc accgtggtc 
      aacaaaacc gtcctcaca acataccaa ttcccctcg 
      tttcaagtg ctaggaatt gggcaaatg attgccacg 
      attttagtg ctcctcata gcgaaaaaa tcccgagtt 
      gtgacgttc cccagtttt gagttgaac acgttcggg 
      aagattttc ccgctcccg ttgatttac attgggaat 
      atgattttt ggactgggg ggcaccaag cagttgagt 
      ctcccgatg tttacagcg cttcgccgg ttctcgatt 
      ttattgaca atgatcctc gagttgtat attctgggg 
      attaggccg agttttagt gtgcaattt agtgtctac 
      accatgatt gtgggggct gtggtggcg gcgagtaac 
      gacattgcg ttcaacctc cagggttat atttacgtt 
      cttttgaac gattttttc accgcaacc aatggggtc 
      tacatgaag aaaaaactc gattcgaaa gagttggga 
      aaatatgga ctcatgttt tataattcg ctctttatg 
      ataatcccg gcggtgttt ttcgcgttt tacaccggc 
      gatttggac tcggcctac aattacaag tattggaac 
      gatgctctt ttcctaact cagtttttt atgtcgtgt 
      attatgggg tttgtgctt tcgtacagt gtggtgttg 
      tgtacttat tacaattcg gcattgaca actacgatt 
      atcggctgt ttgaaaaac atctgtgtt acttattta 
      ggaatggtg attgggggc gattatatt ttctcttgg 
      gttaatttc gtcggaatt aatatcagt gttgtggga 
      agtttgatc tacacttat gttacgttt aagaggaaa 
      gacgccgca ccgacttat gtgccacta gttaatgaa 
      aaagcgacg aaactcgac aatgttgta tag
    mRNA sequence
    • >TC003250 RA
      cttgacata aagatgtca gcacttgtg ccaaagttt 
      tgttgatag tttagattt ctttaacaa gaattatta 
      tctcataat aatcgcaaa taattaaaa tatgatgaa 
      cacaatcgc ttgataaaa caagataaa acacaaaaa 
      acaacaacc cgtaaggta agtcctcca tttgattaa 
      catctcatc cattgtcaa acctaacct aaaaaagag 
      gggatgaca gctcgctca ttatttttt cgtttgaca 
      gtcgaaata atcatttgc tgaaatttt aaagtaatg 
      tgtgcggta tcacgtttc gtgtccaaa caccacata 
      atcagtgac taaaaaaag ccaccggcg aaaatgtcc 
      ttgactcag tgcctggag gacgcaaac aaccagtcc 
      ctactatgg aagcaaatc ttctcggcc cttttctac 
      ggcatcgcc tcgtttatg atcaccgtg gtcaacaaa 
      accgtcctc acaacatac caattcccc tcgtttcaa 
      gtgctagga attgggcaa atgattgcc acgatttta 
      gtgctcctc atagcgaaa aaatcccga gttgtgacg 
      ttccccagt tttgagttg aacacgttc gggaagatt 
      ttcccgctc ccgttgatt tacattggg aatatgatt 
      tttggactg gggggcacc aagcagttg agtctcccg 
      atgtttaca gcgcttcgc cggttctcg attttattg 
      acaatgatc ctcgagttg tatattctg gggattagg 
      ccgagtttt agtgtgcaa tttagtgtc tacaccatg 
      attgtgggg gctgtggtg gcggcgagt aacgacatt 
      gcgttcaac ctccagggt tatatttac gttcttttg 
      aacgatttt ttcaccgca accaatggg gtctacatg 
      aagaaaaaa ctcgattcg aaagagttg ggaaaatat 
      ggactcatg ttttataat tcgctcttt atgataatc 
      ccggcggtg tttttcgcg ttttacacc ggcgatttg 
      gactcggcc tacaattac aagtattgg aacgatgct 
      cttttccta actcagttt tttatgtcg tgtattatg 
      gggtttgtg ctttcgtac agtgtggtg ttgtgtact 
      tattacaat tcggcattg acaactacg attatcggc 
      tgtttgaaa aacatctgt gttacttat ttaggaatg 
      gtgattggg ggcgattat attttctct tgggttaat 
      ttcgtcgga attaatatc agtgttgtg ggaagtttg 
      atctacact tatgttacg tttaagagg aaagacgcc 
      gcaccgact tatgtgcca ctagttaat gaaaaagcg 
      acgaaactc gacaatgtt gtatagtat aagatttgt 
      taggtttta tttttatta cagggttta gaatgataa 
      caacttgat atcacgcta tgacgattt attttgtag 
      atttgtggt gtaaattgt ctcttgccg agagttgtc 
      aaaatgtaa agttagtgc cacacgtat tcaagtgat 
      acgtggtca ataaatata ttattatgt caaaacacg 
      tggctcaaa aagctttta attggttgg ttttgacat 
      cactaattg tcatttttg acaattttt tcttttact 
      tagcttttt gtagaaata acagtttgt tatttcatt 
      tttataaaa tgtttcatc gtgctaact gattaattg 
      tggtttcgt tgaaatcgt taaatgttc atttcacta 
      aaaatattt ttttacaat ctattaaaa tgctcattt 
      tatactttt ataaagtag atttcgtaa ggaagtgta 
      aacatttta accataatc atttcacat aaaatgagc 
      tgtattttt aattttttg aacgttttt ttttttgtc 
      atttcttaa aataccggg tatatagtt ataccctgg 
      gagtatata ccccctgta tacttactc attttttag 
      aaaatttgc catgcattt tttttaata attattatt 
      tatacagta aaaactatt gttgtagtt gtagaagtt 
      tggccttcg tattagtag tttgaaggc cctttcgat 
      ttagatttt tttggcttt tgtaaatct tatataaaa 
      tgtagcatt tttgggtaa aataataat atgtggaaa 
      aaatgtttt ttgaaaaaa aatcattaa ttaattttt 
      tatacttaa tttatgaat aaaatgttc gcacttact 
      tgcgtgaca tcctgtaga ttaaatttt atttttaga 
      ataatagtt taatcaaag gaatgaata aaattttat 
      tgcaacatt ttattcatt tattcttta gattgaact 
      attaataat aatattgtt ttaataaca atattttat 
      gtaaaatga acattttca ctattagga attggaaaa 
      aaaagtgtg gtagacgtg attaaaaaa attttattt 
      actcggctt cgcctcgtt cgcctaaat tattttttg 
      tggctaaag tttgccttt atttactta taccataaa 
      tattattgc attaaaaga ttggaactt tgaagtatt 
      tttcacggt taaaaaact ttacttttg gagtgtttt 
      gaattgtaa taaggaaaa gattatttt attaaataa 
      tgttgcaac acttggtca ctttgacat aatacagtg 
      gttttaaat tacggatat atccaggta caatataaa 
      caactatat tattgtgca tgtggataa agttacgtc 
      tgacagaac catgccttc aaagtatac atatttcgt 
      gtttttgaa tttatgtta acaatgttt acaagaaaa 
      tagaacatg tcaatataa tataattct aatt

    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