Status
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Gene information
General information
TC032400
Former TC numbers

If one gene is splitted or genes are merged, the original TC numbers are listed. One listed former TC number indicates the previous gene has be splitted, serveral former TC number represents a merged gene.

TC002929 		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_007418.3: 6095491..6103618
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
    		TC032400
    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_06940

    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: 70.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
     larva cuticle duplicated - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    Comment: larvae without detectable defects but die during shedding of the skin
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 30% - 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
    • >TC032400 RA
      MVSLPPSLQ KQVSVMSMN LSAKLDELQ RGDRHLETT 
VALCEIRSQ LQELTKSVE SCQSEVSEV KRDMVAIKH 
ELDTVQQVK EEIEELREY VDRLEEHTQ RRKLRLLEQ 
DLTFFLSYA ILAAVLGML QFGYNTGVI NAPEQNIEH 
FMKDVYKTR YGKDLSDDS ARGLYSIAV SIFALGGML 
GGFGGGMVA NKFGRKGGL LLNNVLGIT GACLMWCTK 
LANSYEILF FGRFIIGVN CGLNTSLVP MYISEIAPL 
NLRGGLGTV NQLAVTVGL LLSQVLGIE QILGTNDGW 
PLLLGLAVC PALLQLVLL PICPESPRY LLITKQWEE 
EARKALRRL RASNQVEED IEEMRAEER AQQAEASIS 
MLELICSPT LRAPLIIGV VMQLSQQLS GINAVFYYS 
TSLFVSSGL TEESAKFAT IGIGAIMVV MTLVSIPLM 
DKTGRRTLH LYGLGGMFI FSIFITISF LIKEMIDWM 
SYLSVVSTL GFVVFFAVG PGSIPWMIT AELFSQGPR 
PAAMSIAVL VNWIANFLV GIGFQSLKT WKKREWT
    CDS sequence
    • >TC032400 RA
      atggtatcc ttgcctccc agtctgcaa aaacaggtg 
agcgtgatg agtatgaat ctgagcgcc aaactggac 
gagctccaa cgtggagat cggcacctg gagacaacg 
gtcgctctt tgtgagatc aggtcgcag ctgcaggag 
ctcaccaag tcggtggag tcctgccag tcggaggtg 
tcggaggtc aagagggac atggtggcc atcaagcac 
gagctcgac actgtgcag caagtcaag gaggagatc 
gaggagctg agagagtac gtggaccgg ctcgaggag 
cacacgcag cgcaggaaa ctgcggctg ctcgagcag 
gacctcacg tttttccta tcgtatgcg atcctggcg 
gcggtcctg ggcatgctg cagttcggt tacaacaca 
ggagtgata aacgcgccg gaacagaac attgaacac 
ttcatgaag gacgtgtac aagacgaga tatggaaaa 
gacctatct gatgattct gcacggggc ctctactcc 
attgccgtg tccatattt gcgttagga ggcatgcta 
ggtggcttc ggcggcgga atggtggct aacaaattc 
ggaaggaaa ggcgggctg cttttgaac aacgtcctg 
ggaataact ggggcgtgc ttaatgtgg tgtaccaaa 
ctagcgaac tcatatgaa atactattt tttgggaga 
tttattata ggggtcaat tgtggactg aacacatcc 
ttagtacct atgtatata tccgaaata gctccttta 
aatttacgt ggtggtctt gggacagtg aaccaatta 
gcggttacg gtgggtctt ctgttatca caagtgctc 
ggtatcgaa caaatcctc ggtaccaac gacggttgg 
cctctacta cttggctta gccgtgtgt cctgcctta 
cttcaatta gtacttctt ccaatttgt ccggaaagt 
ccgcgctac ctgctcatc actaagcaa tgggaggag 
gaggcgcgg aaggcattg cggaggttg agggcgagc 
aaccaggtc gaagaagac atcgaagag atgcgggcg 
gaggaacgc gcacagcag gccgaagct tccatcagc 
atgctggag ctgatctgc tcgccgacg ctgcgggcg 
ccgctgatc atcggcgtc gtcatgcag ctctcgcag 
cagctgtcc ggaatcaac gcggtgttc tactactcg 
accagtctg ttcgtcagc tcggggcta acggaggag 
agcgccaag ttcgccacc atcggcatc ggggccatc 
atggtggtc atgacgctg gtttccatc ccgctgatg 
gacaagacc ggcagacgg acgctgcat ctttacggc 
ctcggtggc atgttcatc ttttcgata ttcatcacc 
atctcattt ttaataaag gagatgata gactggatg 
tcgtatctg tctgtggtt tcgacgctg ggattcgtt 
gtgttcttc gccgttggc cccggatcg ataccgtgg 
atgatcacc gccgaactc ttctcgcaa ggacctcgg 
ccggctgcc atgtcaatt gcggtttta gtcaactgg 
attgccaac tttttggtg ggcatcggg ttccaaagt 
ttaaaaaca tggaaaaag cgtgaatgg acttaa
    mRNA sequence
    • >TC032400 RA
      agtgaaaaa aatgagtct acctaagac ttttgagct 
ttatgcgaa tttttgtta attgaaatg tctattttg 
accgcaatt accacaggt atcaaaaaa agctgccat 
aaatggata agatttgtc aatattacg aatacgtga 
ctcattcac aactgtttg aagaaaact caatacttt 
taagaagtt tgacaaaaa attttaaca gtccctttc 
tttatgtaa atttttact ccaaactcc tactttcac 
ggaacttga actaaagca ctggaacta ttgtattat 
ttttgtttc tgttttgtt atttatttc tctgtttat 
tttaataaa ttttgattt gtggaagat tgtcaaacg 
ccatcaaga tgccgcgtc gcagtcgaa caccgcgcg 
tagattagt aactagaag aagtgaagg ggattttcg 
gagggttaa aggatacct ggggaggtg tccactgta 
gtttggaac acagccatg gtatccttg cctcccagt 
ctgcaaaaa caggtgagc gtgatgagt atgaatctg 
agcgccaaa ctggacgag ctccaacgt ggagatcgg 
cacctggag acaacggtc gctctttgt gagatcagg 
tcgcagctg caggagctc accaagtcg gtggagtcc 
tgccagtcg gaggtgtcg gaggtcaag agggacatg 
gtggccatc aagcacgag ctcgacact gtgcagcaa 
gtcaaggag gagatcgag gagctgaga gagtacgtg 
gaccggctc gaggagcac acgcagcgc aggaaactg 
cggctgctc gagcaggac ctcacgttt ttcctatcg 
tatgcgatc ctggcggcg gtcctgggc atgctgcag 
ttcggttac aacacagga gtgataaac gcgccggaa 
cagaacatt gaacacttc atgaaggac gtgtacaag 
acgagatat ggaaaagac ctatctgat gattctgca 
cggggcctc tactccatt gccgtgtcc atatttgcg 
ttaggaggc atgctaggt ggcttcggc ggcggaatg 
gtggctaac aaattcgga aggaaaggc gggctgctt 
ttgaacaac gtcctggga ataactggg gcgtgctta 
atgtggtgt accaaacta gcgaactca tatgaaata 
ctatttttt gggagattt attataggg gtcaattgt 
ggactgaac acatcctta gtacctatg tatatatcc 
gaaatagct cctttaaat ttacgtggt ggtcttggg 
acagtgaac caattagcg gttacggtg ggtcttctg 
ttatcacaa gtgctcggt atcgaacaa atcctcggt 
accaacgac ggttggcct ctactactt ggcttagcc 
gtgtgtcct gccttactt caattagta cttcttcca 
atttgtccg gaaagtccg cgctacctg ctcatcact 
aagcaatgg gaggaggag gcgcggaag gcattgcgg 
aggttgagg gcgagcaac caggtcgaa gaagacatc 
gaagagatg cgggcggag gaacgcgca cagcaggcc 
gaagcttcc atcagcatg ctggagctg atctgctcg 
ccgacgctg cgggcgccg ctgatcatc ggcgtcgtc 
atgcagctc tcgcagcag ctgtccgga atcaacgcg 
gtgttctac tactcgacc agtctgttc gtcagctcg 
gggctaacg gaggagagc gccaagttc gccaccatc 
ggcatcggg gccatcatg gtggtcatg acgctggtt 
tccatcccg ctgatggac aagaccggc agacggacg 
ctgcatctt tacggcctc ggtggcatg ttcatcttt 
tcgatattc atcaccatc tcattttta ataaaggag 
atgatagac tggatgtcg tatctgtct gtggtttcg 
acgctggga ttcgttgtg ttcttcgcc gttggcccc 
ggatcgata ccgtggatg atcaccgcc gaactcttc 
tcgcaagga cctcggccg gctgccatg tcaattgcg 
gttttagtc aactggatt gccaacttt ttggtgggc 
atcgggttc caaagttta aaaacatgg aaaaagcgt 
gaatggact taatttaag attatttag ctttttcat 
acttgtttt agttagaaa atcaacaca gaattactt 
ttattttac gattctagt tgaaaaaat tctcaaact 
agtatgaaa aagttaaat cattcttac aattgatta 
caattttat ggtgtagag gtagataca attcatata 
cttaggtaa cacagtaat tgcctaatg cggatcaaa 
tgtcttatt catctttaa attcctctt cttgtcttc 
catcaaacg taatcgatc gccgctctg gaccattat 
ttacttggc gtttgattc tgtttttct tctctgagt 
cgttttcgt ttgttagtg tatcgtctt cgtttatgc 
tcatattta cactactgt cactcatgt ttaaattta 
attacttat taggtttta taaaattta ttcgtaatt 
tttcactgt tgaagattt gctatgtcg tacaaagtg 
tcaatgagt actcgtagt tctcacgtt aaaaattaa 
atctatcac gttatc

    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