Status
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Gene information
General information
TC004777 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_007416.3: 6859245..6867779
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
    		TC004777
    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_03844

    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: 0.0% (includes death as pupa, adult)

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature degenerated - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    leg musculature not present - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment: body wall muscle pattern ok. coxa musculature present.
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 66.67% (includes death as larva, prepupa, pupa, adult)

    adult lethality - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    Adult morphology
    elytra sometimes colour decreased - Number of animals showing the phenotype: 6


    elytra sometimes surface irregular - Number of animals showing the phenotype: 6


    elytra dorsal orientation not closed - Number of animals showing the phenotype: 6


    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004777 RA
      MVFPKTTPL QNQSRAILK LLDKNLVNR EYVEYQFIQ 
QSQIPTSHF QSALPRLPI PELKLTCER YLAAQRPLL 
IDESYKKTE ANVYRFRDG VGKQLQKIL KDYDNKNKH 
TSYISELWF DKYLRSRSP LPLNCNPVL VLNNDDKPE 
YNNQLIRAT NLIVSSLRF YRALKSELL HPEIFHLNP 
KKSDTERLN FVLSKLPPK LAYICAYFN KAFPLDMSQ 
YPSLFQTTR IPETDKDRL VSCPESKHI TVQYKGRFY 
SFEVLTVSN DIVSPTQIM DNIKFILSD KTDSDKFPI 
GVLTTLERN KWATIRHEL AENGNEALL KTIDSALFH 
VCLDEETVG SDPYKITKQ FLHADGANR WFDNSFSLI 
VARDGAAAV NFEHAWGDG VAVLRYAQD IYNDAKNKP 
RVHPDTALT EDSSCQVQR LEVHLNDHL RKCVDDAKN 
SYKTICDNL DVNYTIFEG IGKDTCKKS QVSPDAIMQ 
LAFQLCCEK QSPIDDLNS SIRRSSFGW SIVSAIIMD 
AYEVELYGD YPNLNNNEL PYIIGCLHT KNMEAVQKF 
FLRGLYKDV KIHQITRWK RNCQPVCVY TVVYKIKVR 
TPDLSEEEI FIPFPDNEE DLKKMFRHI TEMVFGMRV 
VEKKLSDDG VFASISYAP VRCACNVRN FDMAAEEPR 
MQPLITEVA YHKINGLFV STYESCSTS AFKHGRTEA 
IRPCTTATK DVTLAINAL NKPPVAQLK KMIQECSTI 
HNRLIKEAA MGQGFDRHL FALKSMGEK NDIKSNIFD 
DPEYSHMGY DILSTSTLN SPAIFAGGF GPVVPEGFG 
LGYVIKDEF LGTLATNYK DRTNGPDFM GALTKSFEE 
IFAILRTN
    CDS sequence
    • >TC004777 RA
      atggtcttc cccaaaaca acacccctt cagaaccaa 
tcacgggcg attttaaag ctccttgac aagaactta 
gtcaatcgg gaatacgtg gaataccag ttcattcaa 
cagagccaa attccaacc tcacatttc caatcagca 
ttgccccga cttccgatt cctgaatta aaattaacg 
tgtgagcgg tacttggcg gctcagcgg cctttgtta 
atcgacgag tcgtacaaa aaaaccgaa gccaacgtc 
tatcgcttc cgggacggg gttggcaaa cagttacaa 
aaaatttta aaagactac gacaataag aacaagcac 
acgagttac ataagtgag ttgtggttc gacaagtat 
ctaagatcg cgaagtcct ttaccgcta aactgcaac 
ccggtcctg gttttaaac aacgacgat aaaccggaa 
tacaacaat cagctcatt agagccaca aatttgatt 
gtcagctct ttgcgattt taccgtgcc ttaaagtcg 
gagttgttg caccccgaa attttccac ttgaatccg 
aaaaaaagc gacacagag cggctgaac ttcgtcttg 
agtaaattg ccgccgaaa ttggcctac atttgtgcg 
tattttaac aaggcgttc cctttggac atgagtcaa 
tatccgagt ttgttccaa acgactcgt attcctgag 
actgataag gataggctt gttagttgt cccgagtct 
aaacacatt acagtgcag tacaaaggt cgcttctat 
tctttcgaa gtattaact gttagtaat gatatcgtc 
tcgcccacg caaatcatg gacaacatc aagttcatc 
ctgagtgat aagacagat tctgataag tttccaatt 
ggggtcctc acgaccctc gagcgcaac aaatgggcc 
acaattcgc cacgaactg gccgaaaac ggcaacgag 
gccctgctt aaaacaatc gattcggcc ctgtttcac 
gtctgtctg gacgaagaa acggtcgga agcgaccct 
tataaaata actaaacag tttttgcac gccgatggg 
gccaataga tggttcgat aattcgttt tcgctgatt 
gtggcgaga gatggcgcc gctgcggtc aatttcgag 
cacgcgtgg ggagatggc gttgctgtc ttacgttac 
gcacaagac atttacaat gatgcaaaa aataagcca 
agggtgcat cctgatacc gctctaacg gaggattct 
tcctgccaa gttcagcgt ctagaagtt catctgaat 
gatcatttg agaaaatgt gtcgatgat gcgaaaaat 
tcgtataaa acgatttgt gataatctt gatgtcaat 
tatacgatt tttgagggg attggaaag gatacgtgc 
aagaagagt caagtcagt ccagacgcg atcatgcaa 
ctggcgttc cagctctgc tgtgaaaaa caatcgccc 
atcgacgat ttgaactcg tcgattcgt cgcagtagt 
tttggttgg agtattgtg tccgccatt ataatggat 
gcgtatgaa gtggaatta tatggagat tatccgaat 
ttgaataat aacgaattg ccgtatata attggttgt 
ctacataca aaaaacatg gaggccgtc cagaagttt 
tttttgcgg ggcttatac aaagatgtg aagatacat 
caaatcact cgatggaaa agaaattgc cagccagta 
tgtgtgtat acggtggtt tacaaaatc aaggttagg 
actcccgat ttaagtgaa gaggaaatc ttcattcca 
tttccagat aatgaagaa gatttaaaa aaaatgttc 
cgtcatatt actgaaatg gtttttgga atgcgtgtg 
gtcgaaaaa aaactcagt gatgatgga gtcttcgca 
tcaataagc tatgccccg gttcgttgt gcatgcaat 
gtgcgaaat tttgatatg gctgcagag gagcctcgc 
atgcagccc ctaattaca gaggtggct tatcacaaa 
ataaatggg ctttttgtg tccacctac gagtcgtgc 
agcacttct gctttcaag cacggcagg acggaagca 
attcgtccg tgcacgacc gccaccaag gacgttaca 
ttggctatt aacgcgttg aataagcca ccggtggct 
caactgaaa aaaatgatt caggagtgt tcgacgatc 
cacaatagg ctgatcaag gaagctgcg atggggcaa 
ggatttgat cggcacctt ttcgccctt aaatcaatg 
ggcgaaaag aacgatatt aagagcaac atttttgac 
gatcctgag tattcgcac atgggttac gatatactc 
tcgacgagt actttgaac tcgccggcc atttttgcg 
gggggtttt ggaccagtg gtgccggaa gggttcgga 
ttggggtat gtgattaaa gacgagttt ttggggacg 
cttgcaacg aattataag gaccgtact aatggacca 
gacttcatg ggtgctttg acaaagtca ttcgaggaa 
atttttgca attttgcga accaattag
    mRNA sequence
    • >TC004777 RA
      agagacaaa ctttttaat cattgtccc ttattaaag 
ccttgtctt gattccacc ctttactta tctgaattc 
gggggttgg tgcgagaaa tgacttgac agtctgtgt 
ttgacaatg acagttcag tttgacagt agaatgtgt 
aggtaaaat ttgttttgt tgaaatttt cctcatatt 
tcttcaaaa tttagttta atttaaatg tagacacgt 
gcccgtgct tcttttcgt aattagtta atttcgcag 
tgtgtcagt taatcaaaa atggtcttc cccaaaaca 
acacccctt cagaaccaa tcacgggcg attttaaag 
ctccttgac aagaactta gtcaatcgg gaatacgtg 
gaataccag ttcattcaa cagagccaa attccaacc 
tcacatttc caatcagca ttgccccga cttccgatt 
cctgaatta aaattaacg tgtgagcgg tacttggcg 
gctcagcgg cctttgtta atcgacgag tcgtacaaa 
aaaaccgaa gccaacgtc tatcgcttc cgggacggg 
gttggcaaa cagttacaa aaaatttta aaagactac 
gacaataag aacaagcac acgagttac ataagtgag 
ttgtggttc gacaagtat ctaagatcg cgaagtcct 
ttaccgcta aactgcaac ccggtcctg gttttaaac 
aacgacgat aaaccggaa tacaacaat cagctcatt 
agagccaca aatttgatt gtcagctct ttgcgattt 
taccgtgcc ttaaagtcg gagttgttg caccccgaa 
attttccac ttgaatccg aaaaaaagc gacacagag 
cggctgaac ttcgtcttg agtaaattg ccgccgaaa 
ttggcctac atttgtgcg tattttaac aaggcgttc 
cctttggac atgagtcaa tatccgagt ttgttccaa 
acgactcgt attcctgag actgataag gataggctt 
gttagttgt cccgagtct aaacacatt acagtgcag 
tacaaaggt cgcttctat tctttcgaa gtattaact 
gttagtaat gatatcgtc tcgcccacg caaatcatg 
gacaacatc aagttcatc ctgagtgat aagacagat 
tctgataag tttccaatt ggggtcctc acgaccctc 
gagcgcaac aaatgggcc acaattcgc cacgaactg 
gccgaaaac ggcaacgag gccctgctt aaaacaatc 
gattcggcc ctgtttcac gtctgtctg gacgaagaa 
acggtcgga agcgaccct tataaaata actaaacag 
tttttgcac gccgatggg gccaataga tggttcgat 
aattcgttt tcgctgatt gtggcgaga gatggcgcc 
gctgcggtc aatttcgag cacgcgtgg ggagatggc 
gttgctgtc ttacgttac gcacaagac atttacaat 
gatgcaaaa aataagcca agggtgcat cctgatacc 
gctctaacg gaggattct tcctgccaa gttcagcgt 
ctagaagtt catctgaat gatcatttg agaaaatgt 
gtcgatgat gcgaaaaat tcgtataaa acgatttgt 
gataatctt gatgtcaat tatacgatt tttgagggg 
attggaaag gatacgtgc aagaagagt caagtcagt 
ccagacgcg atcatgcaa ctggcgttc cagctctgc 
tgtgaaaaa caatcgccc atcgacgat ttgaactcg 
tcgattcgt cgcagtagt tttggttgg agtattgtg 
tccgccatt ataatggat gcgtatgaa gtggaatta 
tatggagat tatccgaat ttgaataat aacgaattg 
ccgtatata attggttgt ctacataca aaaaacatg 
gaggccgtc cagaagttt tttttgcgg ggcttatac 
aaagatgtg aagatacat caaatcact cgatggaaa 
agaaattgc cagccagta tgtgtgtat acggtggtt 
tacaaaatc aaggttagg actcccgat ttaagtgaa 
gaggaaatc ttcattcca tttccagat aatgaagaa 
gatttaaaa aaaatgttc cgtcatatt actgaaatg 
gtttttgga atgcgtgtg gtcgaaaaa aaactcagt 
gatgatgga gtcttcgca tcaataagc tatgccccg 
gttcgttgt gcatgcaat gtgcgaaat tttgatatg 
gctgcagag gagcctcgc atgcagccc ctaattaca 
gaggtggct tatcacaaa ataaatggg ctttttgtg 
tccacctac gagtcgtgc agcacttct gctttcaag 
cacggcagg acggaagca attcgtccg tgcacgacc 
gccaccaag gacgttaca ttggctatt aacgcgttg 
aataagcca ccggtggct caactgaaa aaaatgatt 
caggagtgt tcgacgatc cacaatagg ctgatcaag 
gaagctgcg atggggcaa ggatttgat cggcacctt 
ttcgccctt aaatcaatg ggcgaaaag aacgatatt 
aagagcaac atttttgac gatcctgag tattcgcac 
atgggttac gatatactc tcgacgagt actttgaac 
tcgccggcc atttttgcg gggggtttt ggaccagtg 
gtgccggaa gggttcgga ttggggtat gtgattaaa 
gacgagttt ttggggacg cttgcaacg aattataag 
gaccgtact aatggacca gacttcatg ggtgctttg 
acaaagtca ttcgaggaa atttttgca attttgcga 
accaattag ttaagcaat gatttatat ttattccgg 
tatttttag ttcgaattt gtattcttc tgtttttgg 
ttgtgtttc atacagtat gagtaaggt tgaatatta 
taaaattat ataattttt tatcgttcg ttaataaat 
gtttcacat tttc

    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