Status
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Gene information
General information
TC003841 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: 22836748..22843686
Sequence information
Transcripts / Proteins (2) 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
    		TC003841
    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 *
    {{ blurIdResult }}
    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_00628

    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: 50.0% (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 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 embryonic musculature and early development
    number of eggs/embryos/larvae on slide: < 50 embryo/egg with embryonic tissue, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     egg without cuticle embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): more than 80%

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 70.0% (includes death as larva, prepupa, pupa, adult)

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

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

    - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 2 (22 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (41 dpi)
    Days post injection

    Fertility
    egg production: number <50% of expected -
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC003841 RA
      MEESKRKGK DIPDNNHEG EKENNVENG HDNDQSDAL 
PDAFGTKLI SNNVVACMP AEKYATHYN MNHKNRGLA 
LIFNHEVFD IHNLKPRTG TDQDRKNLE DVLRKLGFE 
VIVFQDLRY HDIERQIKQ AAKYDHTDS DCLCISVLT 
HGDTGILYA RDTQYKPDL LWSYFAADR CPSLAGKPK 
IFFLQACQG DKLDGGVIL SRTETDGHL EIDSYRIPA 
QADFLVVYS TVKGYYSWR NTTRGSWFI QALCEELRN 
KGFDYDLGT ILTFVSQRV AFDFESNCP DSPTMHQQK 
QIPCVMSML TRLIQFTRV KEGLEENET LQKQEKRKN 
TIKGLFTKG K
    • >TC003841 RB
      MEESKRKGK DIPDNNHEG EKENNVENG HDNDQSDAL 
PDAFGTKLI SNNVVACMP AEKYATHYN MNHKNRGLA 
LIFNHEVFD IHNLKPRTG TDQDRKNLE DVLRKLGFE 
VIVFQDLRY HDIERQIKQ AAKYDHTDS DCLCISVLT 
HGDTGILYA RDTQYKPDL LWSYFAADR CPSLAGKPK 
IFFLQACQG DKLDGGVIL SRTETDGHL EIDSYRIPA 
QADFLVVYS TVKGYYSWR NTTRGSWFI QALCEELRN 
KGFDYDLGT ILTFVSQRV AFDFESNCP DSPTMHQQK 
QIPCVMSML TRLIQFTRV KEG
    CDS sequence
    • >TC003841 RA
      atggaggag agtaaacgc aaagggaaa gacattcct 
gataacaac cacgaaggt gaaaaggaa aataacgtg 
gagaatggc catgacaac gaccaaagt gatgcttta 
cctgatgcg ttcggtact aagctgatt tcgaataat 
gtggtggcg tgtatgcca gctgaaaaa tacgccaca 
cattacaat atgaatcat aagaaccgc ggtttggcc 
ttaattttc aaccatgaa gttttcgat attcataat 
ttgaaacca aggactggg actgatcaa gaccgaaaa 
aatttggaa gatgttttg aggaaactt ggctttgag 
gtcattgtc tttcaagat ttgagatat cacgatatc 
gaacgacag atcaaacag gctgccaaa tatgatcac 
accgattcc gattgcttg tgcatttcc gttctcact 
catggcgac accggaatt ctctacgcc agagacaca 
caatacaaa cctgatttg ctctggagt tattttgca 
gccgatcgg tgcccctct ctagccggc aaaccaaaa 
attttcttc ctgcaagct tgccaaggc gataaattg 
gacggtggt gttatttta tcaagaact gaaactgat 
ggtcacctg gaaattgat tcgtatcgc attccagca 
caggctgat ttcctcgtg gtttattca actgtaaaa 
ggttattat tcgtggcgc aacaccact cgaggctcg 
tggtttatc caagccttg tgtgaagag ctgcgaaat 
aaaggcttt gattacgat ttaggcaca atcctaaca 
tttgtttcc caacgtgtg gctttcgat tttgagagt 
aattgtccc gattcgcca acaatgcac caacaaaaa 
cagattcct tgcgtgatg agtatgctc acaaggttg 
atacagttc acaagggtg aaagaagga ttggaagaa 
aatgaaacg ctccaaaaa caagaaaaa cgtaaaaat 
actattaag ggattattt acaaagggt aaataa
    • >TC003841 RB
      atggaggag agtaaacgc aaagggaaa gacattcct 
gataacaac cacgaaggt gaaaaggaa aataacgtg 
gagaatggc catgacaac gaccaaagt gatgcttta 
cctgatgcg ttcggtact aagctgatt tcgaataat 
gtggtggcg tgtatgcca gctgaaaaa tacgccaca 
cattacaat atgaatcat aagaaccgc ggtttggcc 
ttaattttc aaccatgaa gttttcgat attcataat 
ttgaaacca aggactggg actgatcaa gaccgaaaa 
aatttggaa gatgttttg aggaaactt ggctttgag 
gtcattgtc tttcaagat ttgagatat cacgatatc 
gaacgacag atcaaacag gctgccaaa tatgatcac 
accgattcc gattgcttg tgcatttcc gttctcact 
catggcgac accggaatt ctctacgcc agagacaca 
caatacaaa cctgatttg ctctggagt tattttgca 
gccgatcgg tgcccctct ctagccggc aaaccaaaa 
attttcttc ctgcaagct tgccaaggc gataaattg 
gacggtggt gttatttta tcaagaact gaaactgat 
ggtcacctg gaaattgat tcgtatcgc attccagca 
caggctgat ttcctcgtg gtttattca actgtaaaa 
ggttattat tcgtggcgc aacaccact cgaggctcg 
tggtttatc caagccttg tgtgaagag ctgcgaaat 
aaaggcttt gattacgat ttaggcaca atcctaaca 
tttgtttcc caacgtgtg gctttcgat tttgagagt 
aattgtccc gattcgcca acaatgcac caacaaaaa 
cagattcct tgcgtgatg agtatgctc acaaggttg 
atacagttc acaagggtg aaagaaggg tag
    mRNA sequence
    • >TC003841 RA
      ttattgttt tggcgtttg ttgtgaaca acgtgcgtg 
cgtttgagt gtcttcaaa gaaaattgt gatttttca 
acgatggag gagagtaaa cgcaaaggg aaagacatt 
cctgataac aaccacgaa ggtgaaaag gaaaataac 
gtggagaat ggccatgac aacgaccaa agtgatgct 
ttacctgat gcgttcggt actaagctg atttcgaat 
aatgtggtg gcgtgtatg ccagctgaa aaatacgcc 
acacattac aatatgaat cataagaac cgcggtttg 
gccttaatt ttcaaccat gaagttttc gatattcat 
aatttgaaa ccaaggact gggactgat caagaccga 
aaaaatttg gaagatgtt ttgaggaaa cttggcttt 
gaggtcatt gtctttcaa gatttgaga tatcacgat 
atcgaacga cagatcaaa caggctgcc aaatatgat 
cacaccgat tccgattgc ttgtgcatt tccgttctc 
actcatggc gacaccgga attctctac gccagagac 
acacaatac aaacctgat ttgctctgg agttatttt 
gcagccgat cggtgcccc tctctagcc ggcaaacca 
aaaattttc ttcctgcaa gcttgccaa ggcgataaa 
ttggacggt ggtgttatt ttatcaaga actgaaact 
gatggtcac ctggaaatt gattcgtat cgcattcca 
gcacaggct gatttcctc gtggtttat tcaactgta 
aaaggttat tattcgtgg cgcaacacc actcgaggc 
tcgtggttt atccaagcc ttgtgtgaa gagctgcga 
aataaaggc tttgattac gatttaggc acaatccta 
acatttgtt tcccaacgt gtggctttc gattttgag 
agtaattgt cccgattcg ccaacaatg caccaacaa 
aaacagatt ccttgcgtg atgagtatg ctcacaagg 
ttgatacag ttcacaagg gtgaaagaa ggattggaa 
gaaaatgaa acgctccaa aaacaagaa aaacgtaaa 
aatactatt aagggatta tttacaaag ggtaaataa 
atgcgtaat tacttaatt cgattaatt ttaacatat 
ttgtgcaca ggtgtcttt caaattttt agcttttta 
aattttatt actaaaagt aggtctaag aaatagtga 
tgtttgttt tgtaggaaa ttttcactt tttagtaaa 
ttattttgg ctgttgtat cattccaaa tgcacaagt 
atgtgcagt gcaatcgtt tgattattt ttaagtaaa 
tgttatgcg tagtaagtg ccaatttat gtgttgtgg 
ctgtaaaaa ttagattgg ccacactgt atcattcag 
tcagtgttg ccaacagga ttttaaggt cacaggcca 
cttgatagt ttagttgta tatactttg aaccagttg 
taagccaag caccaatga caacgtgtt ggcgtatgt 
aattaaggc acatgagaa atatcacac tgtattaaa 
tcgttagtt taatttttg catatttaa tatacgtgc 
cattgtctt tcaaaaaag tgtcttatg gaagtcaag 
tgtgttaac gattggaat ggataaact acagctgtg 
taaacattg ccattttaa aaatattgt attactaca 
taattagtt ggtgtattt ttacatgta aatgttttt 
atattgtat acaccttta tgttttaca aaagaataa 
aagatgtac attgtg
    • >TC003841 RB
      ttattgttt tggcgtttg ttgtgaaca acgtgcgtg 
cgtttgagt gtcttcaaa gaaaattgt gatttttca 
acgatggag gagagtaaa cgcaaaggg aaagacatt 
cctgataac aaccacgaa ggtgaaaag gaaaataac 
gtggagaat ggccatgac aacgaccaa agtgatgct 
ttacctgat gcgttcggt actaagctg atttcgaat 
aatgtggtg gcgtgtatg ccagctgaa aaatacgcc 
acacattac aatatgaat cataagaac cgcggtttg 
gccttaatt ttcaaccat gaagttttc gatattcat 
aatttgaaa ccaaggact gggactgat caagaccga 
aaaaatttg gaagatgtt ttgaggaaa cttggcttt 
gaggtcatt gtctttcaa gatttgaga tatcacgat 
atcgaacga cagatcaaa caggctgcc aaatatgat 
cacaccgat tccgattgc ttgtgcatt tccgttctc 
actcatggc gacaccgga attctctac gccagagac 
acacaatac aaacctgat ttgctctgg agttatttt 
gcagccgat cggtgcccc tctctagcc ggcaaacca 
aaaattttc ttcctgcaa gcttgccaa ggcgataaa 
ttggacggt ggtgttatt ttatcaaga actgaaact 
gatggtcac ctggaaatt gattcgtat cgcattcca 
gcacaggct gatttcctc gtggtttat tcaactgta 
aaaggttat tattcgtgg cgcaacacc actcgaggc 
tcgtggttt atccaagcc ttgtgtgaa gagctgcga 
aataaaggc tttgattac gatttaggc acaatccta 
acatttgtt tcccaacgt gtggctttc gattttgag 
agtaattgt cccgattcg ccaacaatg caccaacaa 
aaacagatt ccttgcgtg atgagtatg ctcacaagg 
ttgatacag ttcacaagg gtgaaagaa gggtagggt 
tctgtatta ccgacttta ccatagcat gtatttcta 
tcaagtagc tgtattaag tttaatgtt gagctactt 
gctcattcc atttatatt ccgatctct cttagtttt 
gttttttgc tcaatgcgc gtctaaata gtctaaacg 
atgtgttct tgaagactg ccaaacatg accttaaac 
gtaattttt agattggaa gaaaatgaa acgctccaa 
aaacaagaa aaacgtaaa aatactatt aagggatta 
tttacaaag ggtaaataa atgcgtaat tacttaatt 
cgattaatt ttaacatat ttgtgcaca ggtgtcttt 
caaattttt agcttttta aattttatt actaaaagt 
aggtctaag aaatagtga tgtttgttt tgtaggaaa 
ttttcactt tttagtaaa ttattttgg ctgttgtat 
cattccaaa tgcacaagt atgtgcagt gcaatcgtt 
tgattattt ttaagtaaa tgttatgcg tagtaagtg 
ccaatttat gtgttgtgg ctgtaaaaa ttagattgg 
ccacactgt atcattcag tcagtgttg ccaacagga 
ttttaaggt cacaggcca cttgatagt ttagttgta 
tatactttg aaccagttg taagccaag caccaatga 
caacgtgtt ggcgtatgt aattaaggc acatgagaa 
atatcacac tgtattaaa tcgttagtt taatttttg 
catatttaa tatacgtgc cattgtctt tcaaaaaag 
tgtcttatg gaagtcaag tgtgttaac gattggaat 
ggataaact acagctgtg taaacattg ccattttaa 
aaatattgt attactaca taattagtt ggtgtattt 
ttacatgta aatgttttt atattgtat acaccttta 
tgttttaca aaagaataa aagatgtac attgtg

    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