Status
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Gene information
General information
TC034777 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_007422.5: 4213296..4219875
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
    		TC034777
    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_02529

    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)

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

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

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    adult nutritional state potentially bad (cachectic) - Number of animals showing the phenotype: 2 (11 dpi)
    Days post injection

    Fertility
    egg chamber number decreased - Number of animals showing the phenotype: 2
    vitellogenic egg chamber degenerated - Number of animals showing the phenotype: 2

    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: 70.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 3 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC034777 RA
      MASGVEVNG MNGSPRKRA RTAPQAGHE SKVIVILGA 
QWGDEGKGK VVDMLAETV DIVCRCQGG NNAGHTVVI 
EGVEYDFHL LPSGIIHPK CHSVIGNGV VIHLPGLFE 
EVEKNEKKG LKDWESRLI ISDRAHLVF DFHQQVDGL 
QEQENTQKG QGLGTTKKG IGPTYSSKA TRNGIRIGE 
LLGDFSQFS KKFQGLVNV YQRMFPSLT VDVESELAR 
YKVYAERVR PLVYETVSY LDKAIKSGK KVLVEGANA 
AMLDIDFGT YPYVTSSNC SVGGVCTGL GLSPNRIGE 
VIGVVKAYT TRVGDGPFP TELRDKIGD CLQERGAEV 
GVTTKRKRR CGWLDVFLL QYTNIVNGY TALCLTKLD 
ILDTLPEIK LGVGYKLKG KKIDYFPSS AAELAEVEV 
EYITLPGWK TSTENVRKF NDLPENAKK YVNKVEQLV 
NVPVKWIGV GKGRESIIT LEE
    CDS sequence
    • >TC034777 RA
      atggcgagt ggcgtggaa gtcaacggc atgaatggc 
tcgccccga aagcgggcg cggaccgcc ccccaagcg 
ggccacgag tccaaagtc atcgtgatc ctgggggcg 
caatggggc gacgaaggc aaggggaag gtcgtcgat 
atgctggcc gaaactgtt gacatcgtt tgccggtgt 
cagggtgga aataatgca ggtcataca gtggtaatt 
gaaggggtg gaatacgac ttccatctc ttgcccagt 
gggattata catcccaaa tgccactcg gtaattggc 
aacggtgtc gtcatccac ttgcccggc cttttcgaa 
gaagtggag aagaacgag aaaaaaggc ctcaaagac 
tgggagagc cgactgatt atctcagac cgtgcccac 
ctagttttt gatttccac caacaagtc gatggccta 
caagaacag gaaaatacg caaaaaggc caaggtttg 
ggcaccacg aagaaggga atcggaccg acttactcg 
tccaaagcg accagaaat gggattcgg attggggaa 
ctcttgggc gatttttca caatttagc aaaaagttt 
caaggtttg gttaatgtg taccagagg atgtttccg 
tcgttgact gttgatgtc gagagtgaa ttggcaagg 
tataaggtt tatgccgag agagtgagg cctttggtg 
tacgaaacc gtttcctat cttgataaa gctataaaa 
tcagggaag aaggttcta gttgaaggt gctaatgcg 
gcgatgctg gacatcgat tttggtact tacccttat 
gttacttct tccaattgt agcgtgggt ggggtgtgt 
acaggatta ggtttatca cctaacaga attggcgaa 
gttattgga gttgtcaag gcctacacg acccgtgtt 
ggcgatggc ccttttccc actgaacta cgtgataaa 
atcggcgat tgtttgcaa gaaagagga gccgaagtc 
ggtgttaca acaaaacga aaacgtcgt tgcggttgg 
ttggacgtc tttctcctc caatacact aacatcgtt 
aacggctac actgctctg tgcctaaca aaactcgac 
attttagac actttgcct gaaattaag ttaggagtt 
gggtacaag ttgaagggg aaaaaaatc gactatttt 
ccgtccagt gcggccgag cttgccgaa gttgaggtt 
gagtatata acgcttccg ggctggaaa acctcgacc 
gaaaacgtg cgaaaattc aacgacttg ccggaaaac 
gcgaaaaag tacgtcaac aaggtggag cagttggtt 
aatgtgcca gtgaaatgg attggtgtt gggaaagga 
cgcgagtcg ataatcaca ctagaagag tga
    mRNA sequence
    • >TC034777 RA
      ccgctcaac gacgcacgt cagttctcc ttcggtgtc 
tttgtggtg gtgcttgac cgtgcaaga aatggcgag 
tggcgtgga agtcaacgg catgaatgg ctcgccccg 
aaagcgggc gcggaccgc cccccaagc gggccacga 
gtccaaagt catcgtgat cctgggggc gcaatgggg 
cgacgaagg caaggggaa ggtcgtcga tatgctggc 
cgaaactgt tgacatcgt ttgccggtg tcagggtgg 
aaataatgc aggtcatac agtggtaat tgaaggggt 
ggaatacga cttccatct cttgcccag tgggattat 
acatcccaa atgccactc ggtaattgg caacggtgt 
cgtcatcca cttgcccgg ccttttcga agaagtgga 
gaagaacga gaaaaaagg cctcaaaga ctgggagag 
ccgactgat tatctcaga ccgtgccca cctagtttt 
tgatttcca ccaacaagt cgatggcct acaagaaca 
ggaaaatac gcaaaaagg ccaaggttt gggcaccac 
gaagaaggg aatcggacc gacttactc gtccaaagc 
gaccagaaa tgggattcg gattgggga actcttggg 
cgatttttc acaatttag caaaaagtt tcaaggttt 
ggttaatgt gtaccagag gatgtttcc gtcgttgac 
tgttgatgt cgagagtga attggcaag gtataaggt 
ttatgccga gagagtgag gcctttggt gtacgaaac 
cgtttccta tcttgataa agctataaa atcagggaa 
gaaggttct agttgaagg tgctaatgc ggcgatgct 
ggacatcga ttttggtac ttaccctta tgttacttc 
ttccaattg tagcgtggg tggggtgtg tacaggatt 
aggtttatc acctaacag aattggcga agttattgg 
agttgtcaa ggcctacac gacccgtgt tggcgatgg 
cccttttcc cactgaact acgtgataa aatcggcga 
ttgtttgca agaaagagg agccgaagt cggtgttac 
aacaaaacg aaaacgtcg ttgcggttg gttggacgt 
ctttctcct ccaatacac taacatcgt taacggcta 
cactgctct gtgcctaac aaaactcga cattttaga 
cactttgcc tgaaattaa gttaggagt tgggtacaa 
gttgaaggg gaaaaaaat cgactattt tccgtccag 
tgcggccga gcttgccga agttgaggt tgagtatat 
aacgcttcc gggctggaa aacctcgac cgaaaacgt 
gcgaaaatt caacgactt gccggaaaa cgcgaaaaa 
gtacgtcaa caaggtgga gcagttggt taatgtgcc 
agtgaaatg gattggtgt tgggaaagg acgcgagtc 
gataatcac actagaaga gtgattcaa gttttacat 
agtcataaa tgcacattc aatacttaa atttcaaag 
ataacattc atttatcaa agtaaaaca tgcaatagt 
attagatgt acaagtaca aatctagta tttaacttg 
agtatttgt cggttttaa atgaatttt tttgtttgt 
ttgcacgtg ttttatgca cataaacgt cgcaactcg 
gttaaatca tggcttcca gaaacaaac tgtgcaatt 
gactgaatc agtaagtaa ggttttggt gcctaagaa 
atttgtaaa tacttgttt aaaaatttc atcaagttg 
ttttggctc attttggtt tttttcaac tttgatttg 
cgtgtctta ctgtacttt ggattaaag ggacaatgg 
aaatgcagc aagtacaaa attatttta atttttcgt 
tccaatgta ggttttaca tcaaatatg tattttatt 
gaatttttt gctttttaa agtgttaac agttttatc 
caaacggtt tagactaac ttctgtttt taattgtgg 
ttgtgtaag tacttaatt ttgcacttg atgctttac 
cattaatct cggttttgg ctgttgtac aaataaaaa 
acataaaca aac

    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