Status
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Gene information
General information
TC000531 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_007417.3: 10137372..10140229
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
    		TC000531
    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
    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_10968

    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: 20.0% (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: 1 (9 dpi)
    Days post injection

    Fertility
    mature egg deposition blocked number 1st lateral oviduct: number 2nd lateral oviduct: - Number of animals showing the phenotype: 2

    previtellogenic egg chamber not present - Number of animals showing the phenotype: 2

    egg chamber potentiallydegenerated - Number of animals showing the phenotype: 1

    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
    • >TC000531 RA
      MIKRGSVEL LDMDSNSYG KNLTLDTFR SDSKSNLIN 
SKQETTSWG KTSPSKSYC SSSSTSTEN VVSTLERKK 
ATSFESNVP NRPDDPPLL QGEKVTGQA RDVTYLCPY 
YGPARGVLT VTNYRLYFR SADKDTPNI IDVPLGVVS 
RIEKVGGAS SRGENAYGI EVFCKDMRN LRFAHKQEN 
HSRRDVFEK LQQFAFPLS HKIKLFAFE YSETFPENG 
WAIYEPIAE LKRMGVNND MWKISRINE QYDICDSYP 
AVWAIPAQA TEEDIKSVA SYRSRARIP VLSWIHPES 
QATITRCSQ PLVGVSGKR CREDERYIQ LIMDANAQS 
HKMFIMDAR PSANAIANK AKGGGYESE DAYQNAELV 
FLDIHNIHV MRESLRKLK ELCYPNIEE TKWLSGVES 
TYWLKHIKC ILAGAVRIV DKVENHKTS VLVHCSDGW 
DRTAQLTAL PMLMLDPYY RTIKGFEVL IEKEWLSFG 
HKFQQRIGH GDDHHSDAD RSPVFLQFI DCVWQITQQ 
FPNAFEFND YFLITILDH LYSCRFGTF LCNSERERV 
QEKLKEQTV SLWSYTNSH LDLYKNPLY WANNNQQRV 
LIPIASIRH IKLWKAYYC RWNPSMRTQ DPVYQRIRE 
LLILKEQLE NTVEQCRRE QQSRMARSN VTPA
    CDS sequence
    • >TC000531 RA
      atgataaaa agaggaagt gtcgagtta ttagacatg 
gacagtaat agctacggt aaaaatcta acattggat 
accttccgg tcggattcc aaatctaac ttaataaat 
tcaaaacaa gaaactact agctggggt aagacctcg 
cccagcaag agctactgc tcctccagt tcaacatca 
acggaaaat gtagtttcc accctcgag cggaaaaaa 
gcaacatca ttcgaaagc aacgtcccc aaccggccc 
gacgacccc cctttactc cagggtgaa aaagtaaca 
ggccaagca cgggacgtc acttacctt tgcccctat 
tacggcccc gcaagggga gtcttgacc gtaaccaac 
tataggttg tatttcaga tcggcagat aaagacacc 
cctaacatt atcgacgtg ccattgggt gtggtgtca 
cgtattgag aaagtcggg ggcgcctcc tcgcgtggg 
gagaacgcc tatggcatc gaagtgttc tgcaaagac 
atgcgaaac ttgcgtttc gcccataaa caggaaaac 
cactcgcgc cgcgacgtt ttcgaaaag ttgcaacaa 
ttcgccttc cccctgtcc cacaaaatc aagctgttc 
gcgttcgaa tactctgag acttttccc gagaacggg 
tgggcgatt tatgagcca atcgcggag ctcaagaga 
atgggggtc aataacgac atgtggaaa atatcgcga 
ataaatgag cagtacgac atttgcgat agctatccg 
gctgtttgg gcgattccg gcacaagcc actgaggag 
gatattaaa tctgtggcg agctatcgc agccgcgct 
aggattcct gtccttagt tggattcac cccgaatcg 
caggccacc atcaccagg tgttcgcaa cctttggtt 
ggggtgagt ggtaaaagg tgccgcgag gacgagaga 
tacatccaa ctgataatg gatgcgaac gctcagtcg 
cataaaatg ttcatcatg gatgcgagg cctagcgct 
aacgcgatc gccaataag gcaaaaggg ggcgggtac 
gagtctgaa gacgcctac cagaacgca gagctcgtg 
tttctggac attcacaac attcacgta atgcgggag 
tctttgcga aagctcaaa gaactgtgc tatcccaac 
attgaggaa acgaagtgg ctgtcaggg gtcgagtca 
acctattgg ctgaagcac atcaagtgt attttagcc 
ggggctgtc cgaatcgtt gataaggtt gaaaatcac 
aaaacttca gtgttggtg cactgttcg gacggctgg 
gaccgcaca gcgcaattg acggctttg ccaatgctg 
atgctagac ccttactat cgcacgatc aaaggtttt 
gaagttttg attgagaaa gaatggctc tcatttggc 
cacaaattc caacagcgt atcggacac ggtgatgac 
catcattcg gatgcagac aggtcacct gtttttctc 
cagtttatc gactgcgtg tggcagata acgcaacag 
tttcccaac gctttcgag ttcaatgat tacttttta 
attacgatt cttgatcat ttgtattcg tgtcggttt 
ggcacgttt ttgtgtaac agtgaacgg gaaagggtg 
caagagaaa cttaaagaa cagactgtc tctttgtgg 
tcttacacc aacagtcat ctagacttg tacaaaaat 
ccgctctat tgggccaac aataatcag cagagagta 
ttgattccg attgcaagt attagacat atcaagctg 
tggaaggct tactattgc aggtggaac cccagcatg 
cgaacacag gacccagtt taccagcga ataagagag 
ttgctgata ctgaaggag cagctggaa aataccgta 
gaacagtgc cgcagggag caacagtca cggatggct 
cgaagtaac gtgacgcca gcatag
    mRNA sequence
    • >TC000531 RA
      agctgggtt tttgacagg aacaagtga tttgacagc 
aattaatga tgaaaattg aaaaataaa actaaaata 
atcaaaaga atgataaaa agaggaagt gtcgagtta 
ttagacatg gacagtaat agctacggt aaaaatcta 
acattggat accttccgg tcggattcc aaatctaac 
ttaataaat tcaaaacaa gaaactact agctggggt 
aagacctcg cccagcaag agctactgc tcctccagt 
tcaacatca acggaaaat gtagtttcc accctcgag 
cggaaaaaa gcaacatca ttcgaaagc aacgtcccc 
aaccggccc gacgacccc cctttactc cagggtgaa 
aaagtaaca ggccaagca cgggacgtc acttacctt 
tgcccctat tacggcccc gcaagggga gtcttgacc 
gtaaccaac tataggttg tatttcaga tcggcagat 
aaagacacc cctaacatt atcgacgtg ccattgggt 
gtggtgtca cgtattgag aaagtcggg ggcgcctcc 
tcgcgtggg gagaacgcc tatggcatc gaagtgttc 
tgcaaagac atgcgaaac ttgcgtttc gcccataaa 
caggaaaac cactcgcgc cgcgacgtt ttcgaaaag 
ttgcaacaa ttcgccttc cccctgtcc cacaaaatc 
aagctgttc gcgttcgaa tactctgag acttttccc 
gagaacggg tgggcgatt tatgagcca atcgcggag 
ctcaagaga atgggggtc aataacgac atgtggaaa 
atatcgcga ataaatgag cagtacgac atttgcgat 
agctatccg gctgtttgg gcgattccg gcacaagcc 
actgaggag gatattaaa tctgtggcg agctatcgc 
agccgcgct aggattcct gtccttagt tggattcac 
cccgaatcg caggccacc atcaccagg tgttcgcaa 
cctttggtt ggggtgagt ggtaaaagg tgccgcgag 
gacgagaga tacatccaa ctgataatg gatgcgaac 
gctcagtcg cataaaatg ttcatcatg gatgcgagg 
cctagcgct aacgcgatc gccaataag gcaaaaggg 
ggcgggtac gagtctgaa gacgcctac cagaacgca 
gagctcgtg tttctggac attcacaac attcacgta 
atgcgggag tctttgcga aagctcaaa gaactgtgc 
tatcccaac attgaggaa acgaagtgg ctgtcaggg 
gtcgagtca acctattgg ctgaagcac atcaagtgt 
attttagcc ggggctgtc cgaatcgtt gataaggtt 
gaaaatcac aaaacttca gtgttggtg cactgttcg 
gacggctgg gaccgcaca gcgcaattg acggctttg 
ccaatgctg atgctagac ccttactat cgcacgatc 
aaaggtttt gaagttttg attgagaaa gaatggctc 
tcatttggc cacaaattc caacagcgt atcggacac 
ggtgatgac catcattcg gatgcagac aggtcacct 
gtttttctc cagtttatc gactgcgtg tggcagata 
acgcaacag tttcccaac gctttcgag ttcaatgat 
tacttttta attacgatt cttgatcat ttgtattcg 
tgtcggttt ggcacgttt ttgtgtaac agtgaacgg 
gaaagggtg caagagaaa cttaaagaa cagactgtc 
tctttgtgg tcttacacc aacagtcat ctagacttg 
tacaaaaat ccgctctat tgggccaac aataatcag 
cagagagta ttgattccg attgcaagt attagacat 
atcaagctg tggaaggct tactattgc aggtggaac 
cccagcatg cgaacacag gacccagtt taccagcga 
ataagagag ttgctgata ctgaaggag cagctggaa 
aataccgta gaacagtgc cgcagggag caacagtca 
cggatggct cgaagtaac gtgacgcca gcatagtcc 
ttgtgtaac caaattttc tgtaaatac tagggctaa 
aagcatatt atgtatttc atttgtatt ctcgtaaaa 
taatctgac catgtaatt ttaagttgc aaattttta 
ctaattata tattaatct acaatgcaa tacccgaat 
ataattaat aaatttttt gtccgtat

    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