Status
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Gene information
General information
TC012192 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_007424.3: 3597428..3606526
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
    		TC012192
    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
    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_01945

    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: 60.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (3 dpi)
    Days post injection

    Fertility
    previtellogenic egg chamber complete not present - Number of animals showing the phenotype: 4
    vitellogenic egg chamber number decreased - Number of animals showing the phenotype: 4
    vitellogenic egg chamber shape irregular - Number of animals showing the phenotype: 4
    vitellogenic egg chamber potentially degenerated - Number of animals showing the phenotype: 4
    tropharium potentially irregular - Number of animals showing the phenotype: 4

    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: 60.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt delayed (still prepupa) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection


    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012192 RA
      MADSIELRM SVTSIKRVD PYVKDILAT ATHVALYKF 
NTSTNEWEK TDTEGALFI YSRNGEPFH SIMVMNRLN 
TNNVIEPIV KDFDYQMQI PFLLYRNSK SKIFGIWFF 
NREECVHIT YLIETVMES LKDKSNERS KKQENGVDI 
FSLLSKAQE DFNKTPTKQ ESVPPAFST PRDCTSKSV 
MDFFAKAST KSTHQTPIV TGGDGENVL QRLMSNPAH 
TVEHIEKQQ RSITPQEQV PLRHKINAD RRSVPISFP 
STSNTVDRK DQENRMSFM GVSPPNQAY QGSSPLAFL 
LQGPSQLQQ PEESDAMRT SPFAQFLDN AQKPQLMTP 
MMFTTPTNT EKLDNSKTE PKIENIDLL TEKQLAQAL 
IHLLKTNSN FTRQIHEAY VNSIMERVN CNSNSLM
    CDS sequence
    • >TC012192 RA
      atggccgat tctatcgaa ttgcgtatg agtgttacg 
tctatcaaa agagttgat ccatatgtg aaagatatt 
ttagcgact gctacacac gttgcttta tacaaattc 
aacacctcg accaacgaa tgggagaaa accgacact 
gaaggcgct ttgtttatc tacagcaga aatggagag 
ccgtttcac agtattatg gttatgaac cgactcaac 
acaaacaat gtgatagaa ccaattgtg aaagacttt 
gactatcag atgcaaata ccgtttctg ctctacagg 
aattcaaaa agcaaaata tttggcatc tggttcttc 
aaccgtgaa gagtgtgtg cacattacc tatttaatt 
gaaacagtg atggagagt ctcaaagac aagtcgaac 
gagaggtcg aagaagcag gagaacggc gttgacatt 
ttcagtctt ctctcgaag gcgcaggaa gacttcaat 
aaaacgccg acgaagcaa gaatcggtt ccgccggcg 
ttttctaca cctagggat tgtacttca aaaagtgtt 
atggacttt tttgctaaa gccagcacc aagtcaaca 
catcaaacg cccattgtg acggggggc gacggagag 
aacgtgtta cagaggctg atgtccaac ccggctcac 
acggttgaa cacattgag aagcagcag aggtctatc 
actccacag gagcaggta cctttacgc cacaaaata 
aacgcagac aggcgcagc gttccgatc tcattcccc 
agcactagc aacacagtt gaccgaaaa gaccaagaa 
aatcgaatg agttttatg ggggtttca ccccccaac 
caggcttat caaggttca tcgcctttg gcattcctt 
ctgcaaggg ccaagtcaa ttgcaacaa cctgaagaa 
tctgatgca atgaggact tcgcccttt gcacaattc 
ctagacaac gcgcagaaa ccgcaactg atgactccg 
atgatgttc acaactccg acaaacaca gagaagttg 
gacaacagc aagaccgaa cctaaaatc gaaaatatc 
gatctcttg acggaaaag cagctagca caagctctt 
attcatttg ttgaaaact aattcgaat tttaccaga 
cagatacac gaagcgtat gttaattcg atcatggaa 
agggtgaat tgtaacagt aattcgctt atgtaa
    mRNA sequence
    • >TC012192 RA
      tttacttgg actgtggta ctgagtttg tttcgagga 
aactgtgta gttcttcag ttggggacg gttaaattt 
tgcgaaaag tagatgttg tggttaccg gccgcggtc 
tgcattacc ggcattttt gcagtttca aatcatggc 
cgattctat cgaattgcg tatgagtgt tacgtctat 
caaaagagt tgatccata tgtgaaaga tattttagc 
gactgctac acacgttgc tttatacaa attcaacac 
ctcgaccaa cgaatggga gaaaaccga cactgaagg 
cgctttgtt tatctacag cagaaatgg agagccgtt 
tcacagtat tatggttat gaaccgact caacacaaa 
caatgtgat agaaccaat tgtgaaaga ctttgacta 
tcagatgca aataccgtt tctgctcta caggaattc 
aaaaagcaa aatatttgg catctggtt cttcaaccg 
tgaagagtg tgtgcacat tacctattt aattgaaac 
agtgatgga gagtctcaa agacaagtc gaacgagag 
gtcgaagaa gcaggagaa cggcgttga cattttcag 
tcttctctc gaaggcgca ggaagactt caataaaac 
gccgacgaa gcaagaatc ggttccgcc ggcgttttc 
tacacctag ggattgtac ttcaaaaag tgttatgga 
cttttttgc taaagccag caccaagtc aacacatca 
aacgcccat tgtgacggg gggcgacgg agagaacgt 
gttacagag gctgatgtc caacccggc tcacacggt 
tgaacacat tgagaagca gcagaggtc tatcactcc 
acaggagca ggtaccttt acgccacaa aataaacgc 
agacaggcg cagcgttcc gatctcatt ccccagcac 
tagcaacac agttgaccg aaaagacca agaaaatcg 
aatgagttt tatgggggt ttcaccccc caaccaggc 
ttatcaagg ttcatcgcc tttggcatt ccttctgca 
agggccaag tcaattgca acaacctga agaatctga 
tgcaatgag gacttcgcc ctttgcaca attcctaga 
caacgcgca gaaaccgca actgatgac tccgatgat 
gttcacaac tccgacaaa cacagagaa gttggacaa 
cagcaagac cgaacctaa aatcgaaaa tatcgatct 
cttgacgga aaagcagct agcacaagc tcttattca 
tttgttgaa aactaattc gaattttac cagacagat 
acacgaagc gtatgttaa ttcgatcat ggaaagggt 
gaattgtaa cagtaattc gcttatgta agtttgatg 
ttttttaag ttggacaca gtcttgata gagtcaagg 
ctatcccga atgccttaa attattaga ttttaataa 
cgacattct ttcctcgtt gtttgactg aagaagggt 
tttaatacg taagtaaaa gttcgattt caaacaaca 
cattgtgtc gtgcaatga tgtcttcta taacctaac 
taaatcgct ggtatttag acttcagta tcaaaaaga 
agtaaactt agaacttgt tgtaacgta tatacagtt 
acatgattg tgatacata gaaatacat gtttaggat 
ttgaaaatt caataactt tgctattaa tatagttta 
gacgattaa acgtgcatg tagttggaa tgaactgtt 
tggttttgt tttttattt tcttttact tctttctag 
tcatttatc tgttttaat atccgaaga ggaaatcat 
tttgtttca tgtcgtcaa taaatagcg cccgattaa 
taatataca atgttctca gttaagccc actcaaaga 
actatattt gtagcaaaa cgtatttca atctcatag 
atgtatatt tttaagcaa aagtatata aattcacgc 
tgtaatgtt gttgtcaac agaattgtc atctttgtt 
gatttatat ttttttact tgaatgaat ctgtactac 
cacttccca gtttccagg tcatttgaa cttgtctca 
ctttgttga gtaaaacct ttttttaaa taaagacgt 
tacatctga tttagaact tttatttgc tggatataa 
aaaggcaca ataaataag cattttctt aactaatat 
tatacaaaa taagcgaat acagtcaga atgttaaaa 
gtatacaag atatgtaca tattacgag taattaaat 
ttgagcagt cattatcaa gtggtaaac atcacggca 
atcctggaa atattttat ggtgcggtc agtcgcaaa 
atccaagaa tgtcacagc cgcaagtgc gttaagtct 
tatctctgg aggactaaa ctaggacac aaacaattt 
aagttgttt ggaaatcat gttaaactg tatggttaa 
aagggaaaa taaataaaa tgatttttt acaactaca 
ggatgatta aaaaaaaac agcagcgcg ttatagatt 
ttttatatg atccgattt caaaaatta aaaaagtaa 
aatagttgg cttaaaaaa atgtaaatg ttagtatcc 
agggtgtta gggaatggc ttagcaata attcgtttg 
tgaattt

    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