Status
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Gene information
General information
TC001376 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: 15175891..15178794
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
    		TC001376
    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
    {{ blurEvidenceResult }}
    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_07918

    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: 2 (3 dpi)
    Days post injection

    Adult morphology
    abdominal odoriferous glands content fragmented - Number of animals showing the phenotype: 1 (13 dpi)
    Days post injection


    abdominal odoriferous glands potentially content not present - Number of animals showing the phenotype: 3 (13 dpi)
    Days post injection
    Comment: Stink glands were not visible

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    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
    • >TC001376 RA
      MNGTVWQFG VIQTGCKIC EKRAINSFE TRLVLTFEE 
KNTSLYLLV YHPEGVKKS KEGKYVIFC LTNSGKYEV 
KERAKISQV YENFDLSLL VYKVKLGKF LGEYWCKGY 
TPSLSVLNS NKVIAFRKK EGNEYSLRF TTLVTSDLN 
KFISKTLQK LKTNLGSEI RLMEIFNYN SHSNFLDVL 
VHVTTTQKR EIEPEFRDL WRKICNTSV DVKFFRNCE 
FCLSEKKIN LTWPLTKRN NAIVPEEFC LLEDSIPLT 
RRCNGDFLY GAVWEKTPV QKCAKTEPE SPTTKKLKE 
FAKNSSSVQ NLWNIVKNA TLGVLDIYY LDLILKKIR 
QNSVLAFNI VDKLMATDR HILQKSQHI LNLTDATLE 
LVDEILASE SFNPLEVQL YRKNNLLVH ISNPFLTNI 
SGILLYNNR QVVNFQRGV NFTAMEERD LDLGVHLPE 
QLLEQIRNE TQNVSEVFV IIMVFFNDS LFLDDDFYH 
SDSFVISVT IPGHGAYLQ TPITIAFRP KITPELPPC 
CGFWDIGKS SNWKKGQWS EIGGQFSGK LKDLQVCSY 
SHLTHFALL LMSDKTHLD EDDVIIANE DYNDYILEI 
ITIIGCSLS LFGIFNVFL TAMCYKQWY HKTGTKILL 
NLCLAILLE SICIQLSEI KPLKTHQNL CKIIGMILH 
YVVLSKFTW MLIYALLQY YRFVKVIGV IPQKLVLKS 
LILGWGVPL VLVFLVGLT NDQSYVSES FELCYPRGL 
LLCFGVLLP ICVIVVANI SIFCVIMYN VSNTVAGNR 
KLLKPRLYL ALLLFSVLG IPWVFGLVA ELLNGSVLK 
IVLFYVFCV TATLQGFVL FLFYVVLNR ETRYFWVTK 
LIKK
    CDS sequence
    • >TC001376 RA
      atgaatgga acggtttgg cagtttgga gtgattcaa 
acagggtgc aaaatttgc gaaaaacgg gccattaac 
tcgtttgaa acgagactt gttttgact tttgaggaa 
aaaaacacc agtctttat ttactagtt taccacccc 
gaaggggtc aaaaaatcc aaagagggc aaatacgtg 
attttttgc ctcactaat tctgggaaa tatgaagtg 
aaagagcga gcaaaaatt agtcaagtg tacgaaaat 
ttcgatctc tcgttactt gtgtataag gtaaagttg 
gggaagttt ttgggggag tattggtgc aagggttac 
accccaagt ctgtcagtt ttaaactcg aataaagtc 
attgcgttt cggaaaaaa gaaggtaac gaatattca 
ctcagattc acgactttg gtcacgtct gacttgaac 
aaattcatt tcgaaaaca ctccagaaa ctaaaaacg 
aacttgggt tctgagatt cgtttgatg gagattttc 
aattacaac agtcactct aactttctt gatgtccta 
gtccatgtc acaacaacc caaaaacgt gaaatcgaa 
ccagaattt cgtgactta tggcgaaaa atatgcaac 
acaagtgtt gacgttaaa ttcttccga aattgtgaa 
ttctgtcta agtgaaaaa aaaatcaat ctcacttgg 
cccctcacc aaacgtaac aatgccata gtcccagag 
gaattttgc cttctggag gactccata cctttgact 
cgacgttgc aacggtgat ttcctctat ggagcagtg 
tgggaaaaa accccagtc cagaaatgc gcaaaaacc 
gaacccgaa tccccaaca accaagaaa ttgaaagaa 
ttcgccaaa aatagctct tcggtgcaa aatctctgg 
aacattgtc aagaacgca acacttggg gttttggac 
atttattac ctggatttg attttgaaa aaaatccgc 
caaaacagc gtcttggct ttcaacatt gtggataaa 
ctaatggca accgatcgc cacattttg caaaaatcg 
caacacatt ttaaatttg actgatgcc actttggag 
ctagttgac gaaattctg gcaagtgag agtttcaac 
cctctggaa gtgcaactg taccggaag aacaacctc 
ctagtgcac atttcaaac ccgtttttg accaatatt 
tcgggaatt ttattgtac aataaccgc caagttgtg 
aatttccaa cgtggggta aacttcacg gccatggag 
gagagggac ttggacctg ggggtacac ctcccggag 
caactcctg gagcagatc cgcaacgaa acgcaaaat 
gtgtccgaa gttttcgtc ataattatg gtttttttc 
aacgatagt ttattcctg gatgatgat ttttatcat 
tcggacagc ttcgtcatc agtgtgact attccaggt 
catggtgcc tatttacaa actcctatc actatagcg 
tttcgccct aaaataacc cccgaattg ccgccttgt 
tgtggtttt tgggacatt ggtaaaagt tctaattgg 
aaaaaagga caatggtcc gaaattgga ggccaattt 
tctggcaaa ttgaaagat ttgcaagtt tgttcctac 
tcacatttg actcacttt gccctactt ttaatgagc 
gacaagacg caccttgac gaagacgac gtcattatt 
gctaatgaa gattacaac gattatatt ttagaaatt 
ataacaata attggatgc tcgttatca ctttttggc 
atttttaat gttttcctc acagcaatg tgctacaaa 
cagtggtac cataaaact ggcactaaa attttacta 
aatttatgt ttggcaatc ctacttgaa tcaatctgt 
atccaatta tccgaaatc aaaccatta aaaacgcac 
caaaacttg tgcaaaata attggaatg attctacat 
tatgtcgta ttgagcaaa ttcacctgg atgttaatt 
tatgcattg ttacaatac taccgcttc gttaaagtg 
attggagtc attccgcag aaattggtc ctaaaatcg 
ttgattctg ggttggggg gttccccta gttttggtg 
tttctggtc ggtttaaca aatgatcaa agttacgtt 
tcggaatcg tttgaattg tgttatcct cgcggtttg 
ttgctttgt ttcggtgtt ttgctcccg atttgtgtg 
atagttgtg gcaaatatt tcgattttt tgtgtcatt 
atgtacaat gttagtaac acggttgct ggtaatcgc 
aaattgttg aaaccgcgg ttgtattta gctttgttg 
ttgttttcg gttcttggg attccctgg gtttttggg 
cttgttgcc gagcttttg aatggttca gttttgaaa 
atcgttctt ttttacgtg ttttgtgtc actgcgact 
ttgcaaggt tttgtgcta tttttattt tatgttgtt 
ttgaatagg gagactcgt tatttttgg gtgacaaag 
ttaataaaa aaataa
    mRNA sequence
    • >TC001376 RA
      tatgaccac aaaataatc acaagaatt tgtatcaat 
gggctatgg caccctcca aacccaccc ttgtgccac 
caaaacaat tcaataatt ttccataaa aacgcacca 
ctgtataat tgtcccaaa aactgtcgt tcggtcaat 
ccatttaag tgtttttgc aaatcaaca acttgtgat 
aatttggcg gttgttggc acccttcag gaaaagaaa 
actgtggag ttgttggta ggggatgaa gtgtgtcaa 
ttgggccaa gtcgtccct ggaattccc tcatttatg 
aatggaacg gtttggcag tttggagtg attcaaaca 
gggtgcaaa atttgcgaa aaacgggcc attaactcg 
tttgaaacg agacttgtt ttgactttt gaggaaaaa 
aacaccagt ctttattta ctagtttac caccccgaa 
ggggtcaaa aaatccaaa gagggcaaa tacgtgatt 
ttttgcctc actaattct gggaaatat gaagtgaaa 
gagcgagca aaaattagt caagtgtac gaaaatttc 
gatctctcg ttacttgtg tataaggta aagttgggg 
aagtttttg ggggagtat tggtgcaag ggttacacc 
ccaagtctg tcagtttta aactcgaat aaagtcatt 
gcgtttcgg aaaaaagaa ggtaacgaa tattcactc 
agattcacg actttggtc acgtctgac ttgaacaaa 
ttcatttcg aaaacactc cagaaacta aaaacgaac 
ttgggttct gagattcgt ttgatggag attttcaat 
tacaacagt cactctaac tttcttgat gtcctagtc 
catgtcaca acaacccaa aaacgtgaa atcgaacca 
gaatttcgt gacttatgg cgaaaaata tgcaacaca 
agtgttgac gttaaattc ttccgaaat tgtgaattc 
tgtctaagt gaaaaaaaa atcaatctc acttggccc 
ctcaccaaa cgtaacaat gccatagtc ccagaggaa 
ttttgcctt ctggaggac tccatacct ttgactcga 
cgttgcaac ggtgatttc ctctatgga gcagtgtgg 
gaaaaaacc ccagtccag aaatgcgca aaaaccgaa 
cccgaatcc ccaacaacc aagaaattg aaagaattc 
gccaaaaat agctcttcg gtgcaaaat ctctggaac 
attgtcaag aacgcaaca cttggggtt ttggacatt 
tattacctg gatttgatt ttgaaaaaa atccgccaa 
aacagcgtc ttggctttc aacattgtg gataaacta 
atggcaacc gatcgccac attttgcaa aaatcgcaa 
cacatttta aatttgact gatgccact ttggagcta 
gttgacgaa attctggca agtgagagt ttcaaccct 
ctggaagtg caactgtac cggaagaac aacctccta 
gtgcacatt tcaaacccg tttttgacc aatatttcg 
ggaatttta ttgtacaat aaccgccaa gttgtgaat 
ttccaacgt ggggtaaac ttcacggcc atggaggag 
agggacttg gacctgggg gtacacctc ccggagcaa 
ctcctggag cagatccgc aacgaaacg caaaatgtg 
tccgaagtt ttcgtcata attatggtt tttttcaac 
gatagttta ttcctggat gatgatttt tatcattcg 
gacagcttc gtcatcagt gtgactatt ccaggtcat 
ggtgcctat ttacaaact cctatcact atagcgttt 
cgccctaaa ataaccccc gaattgccg ccttgttgt 
ggtttttgg gacattggt aaaagttct aattggaaa 
aaaggacaa tggtccgaa attggaggc caattttct 
ggcaaattg aaagatttg caagtttgt tcctactca 
catttgact cactttgcc ctactttta atgagcgac 
aagacgcac cttgacgaa gacgacgtc attattgct 
aatgaagat tacaacgat tatatttta gaaattata 
acaataatt ggatgctcg ttatcactt tttggcatt 
tttaatgtt ttcctcaca gcaatgtgc tacaaacag 
tggtaccat aaaactggc actaaaatt ttactaaat 
ttatgtttg gcaatccta cttgaatca atctgtatc 
caattatcc gaaatcaaa ccattaaaa acgcaccaa 
aacttgtgc aaaataatt ggaatgatt ctacattat 
gtcgtattg agcaaattc acctggatg ttaatttat 
gcattgtta caatactac cgcttcgtt aaagtgatt 
ggagtcatt ccgcagaaa ttggtccta aaatcgttg 
attctgggt tggggggtt cccctagtt ttggtgttt 
ctggtcggt ttaacaaat gatcaaagt tacgtttcg 
gaatcgttt gaattgtgt tatcctcgc ggtttgttg 
ctttgtttc ggtgttttg ctcccgatt tgtgtgata 
gttgtggca aatatttcg attttttgt gtcattatg 
tacaatgtt agtaacacg gttgctggt aatcgcaaa 
ttgttgaaa ccgcggttg tatttagct ttgttgttg 
ttttcggtt cttgggatt ccctgggtt tttgggctt 
gttgccgag cttttgaat ggttcagtt ttgaaaatc 
gttcttttt tacgtgttt tgtgtcact gcgactttg 
caaggtttt gtgctattt ttattttat gttgttttg 
aatagggag actcgttat ttttgggtg acaaagtta 
ataaaaaaa taaaattga cacttactt gttttaatt 
tgttaaaac caagagctc caacacata tgtccctct 
tgctgcact ataagtgtt gttttgcat tcctttaaa 
attgattaa atgatataa aagtct

    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