Status
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Gene information
General information
TC014100 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_007420.3: 5671905..5676165
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
    		TC014100
    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 *
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    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_02247

    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: 30.0% (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: 2 (9 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, but muscle fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     cuticle remnants with unidentifyable segments - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 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
    • >TC014100 RA
      MALKQGALF ILAICACTV FAQQQAEET APKKEDSFE 
VELCKDKDA GEWFRLVAG EGDNCRDVI QCTSSGLQA 
IRCPAGLYF DIDKQTCDW KDSVKNCKL KNKERKVKP 
LLITDEPLC PDGSLACGD GNCIERGLF CNGEKDCSD 
GSDENTCDI DNDPNRAPP CDPAVCVLP DCFCSEDGT 
TIPGDLPSK DVPQMITIT FDDAINNNN IELYKEIFN 
GKRKNPNGC DIKATFFVS HKYTNYSAV QEMHRKGHE 
IAVHSITHN DDERFWSNA TVDDWAKEM AGMRIIAEK 
FANLTDNSV VGVRAPYLR VGGNNQFTM MEEQAFLYD 
STITAPLSN PPLWPYTMY FRMPHRCHG NLQSCPTRS 
HAVWEMVLN ELDRREDPT NDEYLPGCA MVDSCSNIL 
TGDQFYNFL NHNFDRHYE ENRAPLGLY FHAAWLKNN 
PEFLDAFLY WVDEILANH NDVYFVTMT QVIQWIQNP 
RTITESKNF EPWREKCVV EGNPHCWVP HSCKLTSKE 
VPGETINLQ TCVRCPNNY PWVNDPTGD GFF
    CDS sequence
    • >TC014100 RA
      atggcgctc aagcaaggt gcgctcttc attcttgcg 
atatgtgcc tgtaccgtt tttgcacaa caacaggcc 
gaagaaacc gcccctaag aaagaagac agtttcgaa 
gtggaatta tgcaaagac aaagatgct ggtgaatgg 
ttccgtttg gtggcggga gaaggcgac aactgccgc 
gacgtcatt caatgcaca tcttctggc ctccaagcc 
atccgttgc ccggcaggt ttgtatttc gacatcgat 
aagcagact tgcgactgg aaggactcc gtcaaaaac 
tgcaaactc aagaacaag gagcgcaaa gtcaagccg 
ctgttgatc acggacgag cccctttgc cccgacggg 
tctctggct tgcggcgac ggcaactgc atagaaagg 
gggctgttc tgcaacgga gagaaagac tgctcggac 
ggatccgac gaaaatact tgtgatatt gacaatgat 
ccaaaccgc gcccctcct tgcgacccc gccgtgtgc 
gttcttccc gactgtttc tgctcggag gatggcacc 
accatcccc ggcgacctt ccctctaaa gacgttccg 
caaatgatc acaatcact ttcgacgac gccatcaat 
aacaacaac atcgagcta tacaaggaa attttcaat 
ggcaaacgc aaaaacccc aacggctgc gacattaaa 
gccacattc ttcgtatct cataaatac accaactac 
tcagccgtt caggaaatg caccgcaaa ggccacgag 
atcgccgtc cactccatc acccacaat gacgacgag 
cgtttctgg tcgaacgca acggtggac gactgggcc 
aaggagatg gccggcatg agaatcatc gccgagaaa 
ttcgcgaat ttgaccgac aacagcgtg gtcggagtg 
cgcgccccg tacctgagg gtgggcggc aacaaccaa 
ttcaccatg atggaggaa caggccttc ttgtacgac 
tccaccatc acggcgccc ctcagcaac ccgcccctg 
tggccctac accatgtac ttccggatg ccgcatcgc 
tgccacggc aatttgcag agctgcccc accaggagc 
cacgcagtt tgggagatg gtcctgaac gagctggac 
cggagggaa gaccccacc aacgacgag tacctccct 
gggtgcgct atggtcgat tcgtgttcg aacatattg 
accggggac cagttctac aatttcttg aaccacaat 
ttcgaccgc cactacgag gagaaccgc gctcccttg 
ggcctgtac ttccatgct gcgtggttg aagaacaat 
cctgagttc ttggacgcc tttctctac tgggttgac 
gaaatcctg gccaaccat aatgacgtc tatttcgta 
accatgacg caagttatc caatggatt cagaatcct 
agaaccatc accgaatcg aagaacttt gagccgtgg 
agagagaag tgcgtggtc gagggaaac ccccactgc 
tgggtgcca cactcttgc aaactcact tcaaaggaa 
gttcctgga gaaaccatc aacctccaa acttgcgtg 
cgttgtcct aataattac ccatgggtt aatgatccg 
accggggac ggtttcttc taa
    mRNA sequence
    • >TC014100 RA
      gggtctgtc aattgtgtt cagcggtgt agtgcttta 
gtttgatag tgatggcgc tcaagcaag gtgcgctct 
tcattcttg cgatatgtg cctgtaccg tttttgcac 
aacaacagg ccgaagaaa ccgccccta agaaagaag 
acagtttcg aagtggaat tatgcaaag acaaagatg 
ctggtgaat ggttccgtt tggtggcgg gagaaggcg 
acaactgcc gcgacgtca ttcaatgca catcttctg 
gcctccaag ccatccgtt gcccggcag gtttgtatt 
tcgacatcg ataagcaga cttgcgact ggaaggact 
ccgtcaaaa actgcaaac tcaagaaca aggagcgca 
aagtcaagc cgctgttga tcacggacg agccccttt 
gccccgacg ggtctctgg cttgcggcg acggcaact 
gcatagaaa gggggctgt tctgcaacg gagagaaag 
actgctcgg acggatccg acgaaaata cttgtgata 
ttgacaatg atccaaacc gcgcccctc cttgcgacc 
ccgccgtgt gcgttcttc ccgactgtt tctgctcgg 
aggatggca ccaccatcc ccggcgacc ttccctcta 
aagacgttc cgcaaatga tcacaatca ctttcgacg 
acgccatca ataacaaca acatcgagc tatacaagg 
aaattttca atggcaaac gcaaaaacc ccaacggct 
gcgacatta aagccacat tcttcgtat ctcataaat 
acaccaact actcagccg ttcaggaaa tgcaccgca 
aaggccacg agatcgccg tccactcca tcacccaca 
atgacgacg agcgtttct ggtcgaacg caacggtgg 
acgactggg ccaaggaga tggccggca tgagaatca 
tcgccgaga aattcgcga atttgaccg acaacagcg 
tggtcggag tgcgcgccc cgtacctga gggtgggcg 
gcaacaacc aattcacca tgatggagg aacaggcct 
tcttgtacg actccacca tcacggcgc ccctcagca 
acccgcccc tgtggccct acaccatgt acttccgga 
tgccgcatc gctgccacg gcaatttgc agagctgcc 
ccaccagga gccacgcag tttgggaga tggtcctga 
acgagctgg accggaggg aagacccca ccaacgacg 
agtacctcc ctgggtgcg ctatggtcg attcgtgtt 
cgaacatat tgaccgggg accagttct acaatttct 
tgaaccaca atttcgacc gccactacg aggagaacc 
gcgctccct tgggcctgt acttccatg ctgcgtggt 
tgaagaaca atcctgagt tcttggacg cctttctct 
actgggttg acgaaatcc tggccaacc ataatgacg 
tctatttcg taaccatga cgcaagtta tccaatgga 
ttcagaatc ctagaacca tcaccgaat cgaagaact 
ttgagccgt ggagagaga agtgcgtgg tcgagggaa 
acccccact gctgggtgc cacactctt gcaaactca 
cttcaaagg aagttcctg gagaaacca tcaacctcc 
aaacttgcg tgcgttgtc ctaataatt acccatggg 
ttaatgatc cgaccgggg acggtttct tctaagtca 
cccatttag ataattaag ggacttttt atagtgtca 
cccttgcca aaatggctc gtaattggg gttttagtg 
atcctgctg ttccatctt gtatttatt attttcaat 
gactgtatg cgtgattta tttgttgat tttttttgt 
aataaatat atcttgata aggctagac tgttaattt 
ctcgattaa atatcctag cggcgaagt agcgtcctc 
tatgtgaaa cacacaaac atgtaacat acactccta 
gtaagtata tgtaaattt ataaacgat tatgttttg 
taaaaattt gaataaaat catgaccaa aaa
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