Status
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Gene information
General information
TC015466 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_007423.3: 9536878..9547013
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
    		TC015466
    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
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    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_10162

    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)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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
    • >TC015466 RA
      MAKASKPTP AKKPASEKP SKPEVKELK ISDMSWKER 
YIFLTENIT VEPMLACYI IPSVFASLA TQNLNLEKA 
CRVNLAYSP EVCDALSVR NTANYTSEE QAVQQLVAS 
MGVWKTMLQ SALPAFLIM FVGSWSDRW GQRKPCMLL 
PIVGELCTV LGLMVCTFF FYELPMEVA GFIEGLFPA 
LTGGWFTMF MGVFSYIAD VTTLEMRTL RIGIVNVFC 
SLGVPIGLA LSGVLYKKI GFYGVFSVS AVMYVMALY 
YGITRFKEA KKVDVPTLE SKPCAFLRD FFDVRHLWE 
TFRVAFKEG ENNRRKKVM LLMLVVMVV IGPLHGEMN 
VTYLFTRYR FNWDEVDFS IFSTYSMVT NLIGTSISV 
GVFSHVLKI DDAIIGIYS SMSKILSSF VYGFAKTSL 
VFYLGAIVE ILNGTSFIA MRSIASKLV PPDELGKVN 
SLFGACEAL MPLVYGPMY SATYAATIN VMPGAFFIL 
GGILTVPAV LIFGWMYVQ HKKDAKRAN SAESGPVDS 
ILQDVISST APKEAQIGS PVLNGIRKA GLNNPAFEM 
EK
    CDS sequence
    • >TC015466 RA
      atggcaaaa gctagtaaa ccgaccccg gccaaaaaa 
cccgcctcc gaaaagcca tcaaaaccc gaagtaaaa 
gaactcaaa ataagcgac atgagctgg aaagaacgc 
tacatcttc ctcactgaa aacatcaca gtcgaaccc 
atgctagct tgctacata atccccagt gtattcgca 
agcttagcc acccagaac ttaaactta gaaaaagcc 
tgtcgcgta aatttagct tattctccc gaagtttgc 
gacgctttg agcgtccgc aacaccgca aactacacc 
agtgaagag caagccgtc cagcagctg gtcgcctcc 
atgggtgtg tggaagacc atgctccag agcgcgctc 
ccggccttc ctcatcatg ttcgtgggc tcgtggagc 
gaccgctgg ggccagcgc aagccctgc atgcttttg 
cccatcgtt ggggagctg tgtaccgtg ctgggtctg 
atggtatgc acgtttttc ttctacgaa ctgcccatg 
gaagtcgcc gggttcatc gaaggtctc tttccggca 
ctcaccggg ggctggttt acaatgttc atgggtgtt 
tttagttac attgctgat gttacaacg ctggaaatg 
cgcacgttg aggatcggg attgtgaac gttttctgc 
tcgctggga gtgcccatt gggctggcg ctgagcggg 
gttttgtat aagaagatt gggttttat ggggttttt 
tcggtttcg gctgtgatg tatgtgatg gcgttgtat 
tatgggatt acgaggttt aaagaggcg aaaaaagtc 
gatgtgccg acgctggaa agtaaaccg tgtgccttt 
ctgagggat ttctttgat gtgaggcat ttgtgggag 
acgttcaga gtagcgttt aaagaagga gagaataat 
cgcaggaag aaagtcatg ctgctgatg ctggtggtt 
atggtggtc attgggccc ttgcatggt gagatgaac 
gtgacctat ctattcaca agataccgc ttcaattgg 
gacgaagtg gactttagc attttctca acctacagc 
atggtgacg aacttaatt ggaacttca atttccgtg 
ggcgttttc agccacgtt ctaaaaatc gacgatgcc 
atcattggc atttactcc tcaatgagc aaaatctta 
tcaagcttc gtttacggt tttgcgaaa acatccttg 
gttttctat ttgggcgca attgtcgaa atactcaat 
ggaacgtct tttattgcc atgaggtcg atcgcgtcc 
aaattagta ccacctgat gaacttgga aaagtcaat 
tccttgttt ggagcttgc gaggcttta atgcccctg 
gtctacggc ccaatgtac agtgccaca tacgccgcc 
accatcaat gtaatgccg ggggcattt ttcatactt 
ggcggcata cttacagta cctgcagta cttattttc 
ggttggatg tacgtccag cacaaaaag gacgccaaa 
cgggccaat tcggccgaa tccgggcct gtggactcc 
attctgcag gatgtcatc tcgtcgacg gcccccaaa 
gaggcacaa atcggaagt ccggtcctg aacggtatc 
aggaaagct ggccttaat aatccagct tttgagatg 
gagaaatga
    mRNA sequence
    • >TC015466 RA
      ggatttaga aatccattt gaatttgtc aatcattga 
taactccgg tcagttctt tccggccag cgaaagtgt 
aacacagtg atggaactt taaaacttt cggtgccaa 
ttttttttg tgatttttg tgtaaaaaa tttaagatc 
ctccagcac agcaaaatg gcaaaagct agtaaaccg 
accccggcc aaaaaaccc gcctccgaa aagccatca 
aaacccgaa gtaaaagaa ctcaaaata agcgacatg 
agctggaaa gaacgctac atcttcctc actgaaaac 
atcacagtc gaacccatg ctagcttgc tacataatc 
cccagtgta ttcgcaagc ttagccacc cagaactta 
aacttagaa aaagcctgt cgcgtaaat ttagcttat 
tctcccgaa gtttgcgac gctttgagc gtccgcaac 
accgcaaac tacaccagt gaagagcaa gccgtccag 
cagctggtc gcctccatg ggtgtgtgg aagaccatg 
ctccagagc gcgctcccg gccttcctc atcatgttc 
gtgggctcg tggagcgac cgctggggc cagcgcaag 
ccctgcatg cttttgccc atcgttggg gagctgtgt 
accgtgctg ggtctgatg gtatgcacg tttttcttc 
tacgaactg cccatggaa gtcgccggg ttcatcgaa 
ggtctcttt ccggcactc accgggggc tggtttaca 
atgttcatg ggtgttttt agttacatt gctgatgtt 
acaacgctg gaaatgcgc acgttgagg atcgggatt 
gtgaacgtt ttctgctcg ctgggagtg cccattggg 
ctggcgctg agcggggtt ttgtataag aagattggg 
ttttatggg gttttttcg gtttcggct gtgatgtat 
gtgatggcg ttgtattat gggattacg aggtttaaa 
gaggcgaaa aaagtcgat gtgccgacg ctggaaagt 
aaaccgtgt gcctttctg agggatttc tttgatgtg 
aggcatttg tgggagacg ttcagagta gcgtttaaa 
gaaggagag aataatcgc aggaagaaa gtcatgctg 
ctgatgctg gtggttatg gtggtcatt gggcccttg 
catggtgag atgaacgtg acctatcta ttcacaaga 
taccgcttc aattgggac gaagtggac tttagcatt 
ttctcaacc tacagcatg gtgacgaac ttaattgga 
acttcaatt tccgtgggc gttttcagc cacgttcta 
aaaatcgac gatgccatc attggcatt tactcctca 
atgagcaaa atcttatca agcttcgtt tacggtttt 
gcgaaaaca tccttggtt ttctatttg ggcgcaatt 
gtcgaaata ctcaatgga acgtctttt attgccatg 
aggtcgatc gcgtccaaa ttagtacca cctgatgaa 
cttggaaaa gtcaattcc ttgtttgga gcttgcgag 
gctttaatg cccctggtc tacggccca atgtacagt 
gccacatac gccgccacc atcaatgta atgccgggg 
gcatttttc atacttggc ggcatactt acagtacct 
gcagtactt attttcggt tggatgtac gtccagcac 
aaaaaggac gccaaacgg gccaattcg gccgaatcc 
gggcctgtg gactccatt ctgcaggat gtcatctcg 
tcgacggcc cccaaagag gcacaaatc ggaagtccg 
gtcctgaac ggtatcagg aaagctggc cttaataat 
ccagctttt gagatggag aaatgaaac tacagtgtg 
atactaaag tattaaaat accgggcgg ttaatgaat 
ttttttttg tacatatta atttcattc aagggttga 
cgttttaat ttattaggc tgtgcagaa ctgtgttga 
tatatacgt atattttat tttaaatga acaaaaaat 
tgaaccaag taaattgac aatttacca gcaatgcaa 
acgtaatta atgtgattc atttaaaaa atgtttttg 
taaatagat ttctgttgc tgttgtagt tttaattaa 
aacacaaaa gttttatgg gttttgtgg tccattgaa 
aatagtgaa cattgtcaa agtcggtaa atctaacaa 
aaaatttct ttcccatca cttaaaaaa tcttgaact 
cgactttat tggatttac agatttacg tacaatttt 
caatgtttt ctggaatgc agtaccgaa ttattatta 
gattaggtg taaattgta atatattaa ataataaaa 
gaacaaagt cttg

    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