Status
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Gene information
General information
TC001075 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: 10574280..10580804
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
    		TC001075
    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 *
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_03131

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    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
    • >TC001075 RA
      MAEDSKSSD ASDSSSESP NEPVKLEKP IPKPLIQGK 
VTKKRKNII SVCLTNCRY EVIRKIAAK FAYKEVSES 
ENWNLYWTD LSITVERCK EMKRYQKIN HFPGMLEIC 
RKDLLARNL NRMLRLFPK EYNFFPRTW CLPADLGEA 
LTYSRLRRN RTFILKPDA GSQGRGIFV TKSLKDIRP 
CDRGVCQVY INKPYLIDG YKFDLRIYT LITSCDPLR 
IYIYEEGLV RFATTRYKE PNAVNITNV FMHLTNYAV 
NKYSRTYNQ DTEEGSKRK LSWFNNYLR KLGHDVEGI 
WKRIDDVII KTVISAAPV LKHSYAACF PNHDVIPAC 
CELLGVDII LDKRLNPQI LEVNHSPSF HTDTALDWE 
IKESLLSDM FAMMNLDKC DKRKVMRED RKRIRERLL 
HGKDHQPPV VVSFDDYYR HEMNSRGGF RLVYPSQAT 
KVHYNKFFD QGQGSLYSE TAASRAREA AQNALRDEM 
QLKARLEAA KRVVIPPIK PTPPKKQES PNLSQKPTS 
KSTAVLSVM SSSEPQMIV ESEERDRLQ KLAQREYLI 
RSHGILEHV YFSMKKNGN LRPRDEKKF AIFDKIRAT 
SENNFNKQN GIAISDFVE SIKAKSSI
    CDS sequence
    • >TC001075 RA
      atggctgaa gattccaaa agcagcgac gcctcagac 
agttcctca gagagtccg aatgaaccc gttaaactc 
gaaaaaccg ataccaaag cccctcatc caggggaaa 
gtcacgaaa aaacggaaa aacatcatt tcagtgtgt 
ctgacaaat tgccgctat gaagtcatt cggaaaatt 
gctgccaaa tttgcgtac aaagaggtg agcgaaagc 
gaaaactgg aacttgtac tggaccgac ctctccatc 
acggtcgag cggtgcaag gaaatgaag cgctaccag 
aaaatcaac cactttcct ggaatgctg gaaatttgc 
cgcaaggat ctcctggca cggaatctg aacagaatg 
ctcagactt tttccaaag gagtataat tttttccca 
aggacttgg tgtctgcct gccgatttg ggcgaagcc 
ctcacttat agtagactg cgtcggaac cggactttt 
atactaaaa ccggacgcc gggagccaa ggacgcgga 
attttcgta acgaaaagt ttgaaagac attaggccc 
tgtgatagg ggcgtttgt caagtctac atcaacaaa 
ccgtatctt atagatggt tacaagttc gacttgaga 
atatacacc ttaatcaca tcgtgtgac cctttacga 
atttatatt tacgaagag ggtttggtc agatttgct 
accacaagg tacaaggaa cctaacgca gttaacatc 
accaatgtc ttcatgcat ttgacaaac tatgcggtc 
aataagtac agccgcacg tacaaccaa gacactgag 
gaaggtagc aaaagaaaa ttgtcgtgg tttaacaac 
tatttgcga aagttgggc cacgatgtt gagggtatt 
tggaaaaga atcgacgat gttatcatt aaaactgtg 
attagcgca gctcctgtt ctcaagcac agctacgct 
gcttgtttc ccaaaccat gacgtgatc ccggcttgt 
tgcgagcta ctaggagtc gatataatc ctggataaa 
agactaaac ccccagatt ctagaagtg aaccactct 
cctagtttc cacacagac actgctcta gactgggag 
attaaagaa tctctcctt tcggacatg ttcgcaatg 
atgaactta gacaagtgt gacaaaaga aaagtcatg 
agagaagac cgaaaacgt ataagggaa agattacta 
cacggtaaa gaccaccag cctccagtt gttgtcagc 
tttgacgat tattaccgc cacgaaatg aacagtcgc 
ggaggcttt cgcctagtt tacccaagc caggcaacc 
aaagtacac tacaacaaa tttttcgat caaggccaa 
ggctcctta tattccgaa actgcagct agtcgagcc 
agagaagcg gctcagaat gctctccga gacgaaatg 
cagctgaaa gcgaggttg gaagcagca aaacgagtg 
gtgattcca ccaattaaa cccacaccg cccaaaaaa 
caagaaagc ccgaatctg agtcaaaaa ccaacgtcc 
aaatctacc gcagttttg tcggtaatg agttcctca 
gaaccacaa atgatcgtc gaatcggag gaaagagat 
cgcctccaa aagctggct cagcgggag tatcttatt 
cgaagtcac ggtattttg gaacatgtc tatttttca 
atgaagaag aatgggaat ttgagaccg cgtgacgaa 
aagaagttc gcaattttt gacaagata cgcgccaca 
agtgagaat aattttaac aagcaaaat gggatcgct 
atctcggat tttgtggag tcgatcaag gccaagtcg 
agcatctga
    mRNA sequence
    • >TC001075 RA
      ggtcttgag aatcctatt gtccgaaag tttgtccgg 
aggagcaaa cccggttgt aaaaatttc gggccatta 
ctgcattta atatgcgca ctgaaagct ctacggcct 
ttatagtgg cggtttatg tacgtttta catccgcat 
aaaatatca gaacaccat aaataagta gtcttgaca 
attcctcaa atattacca ccgaaccaa cttagggga 
taatttaca aactgaaat aaactgtcg caattttat 
ttcttacgg cctgtacaa acacttaca atatttaat 
agctagtaa caagattaa tgcttaata aaatcgaca 
ctcaaacac taattatcg atctcttct ctgggacaa 
cacactttg gggttggta ccattaaac ccgcactga 
gaccgcatc aaaaacgtt agcgtttcg atagtaatc 
ggagcattg aaattattt gaaagtgta aacacagtg 
ggacattcc tgcaaatct atgcaccag ccgagttcc 
gaattcggc gtcaaacac tcttctggc agcgctacc 
aataaagaa agtcaaaga ttgatcaat tttccaaat 
ttggccgta cctgtgcct gtttgcagt aaaacagca 
gccgccaaa cacacaaac actgcacta ggtgtcaac 
attgtcaag gagcaatca taactaaag caaccgttg 
aagaaagta gtctgttcc cgttctcct tgacattgt 
tatcggtcc gctcatcga ctccattaa gggtcatcg 
cctcaaatt cattcacaa agtcattca gctcatttt 
cgcaaccaa atccccgcc cgaaataaa tgacgttga 
cagtttaat caaaattcg tgacccgat ttaatttcg 
tcatcctcc tatggctga agattccaa aagcagcga 
cgcctcaga cagttcctc agagagtcc gaatgaacc 
cgttaaact cgaaaaacc gataccaaa gcccctcat 
ccaggggaa agtcacgaa aaaacggaa aaacatcat 
ttcagtgtg tctgacaaa ttgccgcta tgaagtcat 
tcggaaaat tgctgccaa atttgcgta caaagaggt 
gagcgaaag cgaaaactg gaacttgta ctggaccga 
cctctccat cacggtcga gcggtgcaa ggaaatgaa 
gcgctacca gaaaatcaa ccactttcc tggaatgct 
ggaaatttg ccgcaagga tctcctggc acggaatct 
gaacagaat gctcagact ttttccaaa ggagtataa 
ttttttccc aaggacttg gtgtctgcc tgccgattt 
gggcgaagc cctcactta tagtagact gcgtcggaa 
ccggacttt tatactaaa accggacgc cgggagcca 
aggacgcgg aattttcgt aacgaaaag tttgaaaga 
cattaggcc ctgtgatag gggcgtttg tcaagtcta 
catcaacaa accgtatct tatagatgg ttacaagtt 
cgacttgag aatatacac cttaatcac atcgtgtga 
ccctttacg aatttatat ttacgaaga gggtttggt 
cagatttgc taccacaag gtacaagga acctaacgc 
agttaacat caccaatgt cttcatgca tttgacaaa 
ctatgcggt caataagta cagccgcac gtacaacca 
agacactga ggaaggtag caaaagaaa attgtcgtg 
gtttaacaa ctatttgcg aaagttggg ccacgatgt 
tgagggtat ttggaaaag aatcgacga tgttatcat 
taaaactgt gattagcgc agctcctgt tctcaagca 
cagctacgc tgcttgttt cccaaacca tgacgtgat 
cccggcttg ttgcgagct actaggagt cgatataat 
cctggataa aagactaaa cccccagat tctagaagt 
gaaccactc tcctagttt ccacacaga cactgctct 
agactggga gattaaaga atctctcct ttcggacat 
gttcgcaat gatgaactt agacaagtg tgacaaaag 
aaaagtcat gagagaaga ccgaaaacg tataaggga 
aagattact acacggtaa agaccacca gcctccagt 
tgttgtcag ctttgacga ttattaccg ccacgaaat 
gaacagtcg cggaggctt tcgcctagt ttacccaag 
ccaggcaac caaagtaca ctacaacaa atttttcga 
tcaaggcca aggctcctt atattccga aactgcagc 
tagtcgagc cagagaagc ggctcagaa tgctctccg 
agacgaaat gcagctgaa agcgaggtt ggaagcagc 
aaaacgagt ggtgattcc accaattaa acccacacc 
gcccaaaaa acaagaaag cccgaatct gagtcaaaa 
accaacgtc caaatctac cgcagtttt gtcggtaat 
gagttcctc agaaccaca aatgatcgt cgaatcgga 
ggaaagaga tcgcctcca aaagctggc tcagcggga 
gtatcttat tcgaagtca cggtatttt ggaacatgt 
ctatttttc aatgaagaa gaatgggaa tttgagacc 
gcgtgacga aaagaagtt cgcaatttt tgacaagat 
acgcgccac aagtgagaa taattttaa caagcaaaa 
tgggatcgc tatctcgga ttttgtgga gtcgatcaa 
ggccaagtc gagcatctg atgagtgaa atgggcctc 
taatacatt tattaacac acgtttatt tgcccagtt 
gacaataat caaattatt ctcagtaat aatgtactt 
ttatctat

    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