Status
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Gene information
General information
TC004992 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: 557126..574218
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
    		TC004992
    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_00794

    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: 10.0% (includes death as pupa, adult)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    adult nutritional state - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    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: 100.0% (includes death as larva, prepupa, pupa, adult)

    pupal molt not fulfilled (died as pupa) - Number of animals showing the phenotype: 1 (11 dpi)
    Days post injection

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

    not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (16 dpi)
    Days post injection

    Comment: at this timepoint still living

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

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 6 (19 dpi)
    Days post injection

    Pupal morphology
    antenna shortened - Number of animals showing the phenotype: 9

    wings shortened - Number of animals showing the phenotype: 9
    oblique dorsal thoracic muscles fragmented - Number of animals showing the phenotype: 8

    female genital lobes decreased - Number of animals showing the phenotype: 9
    Adult morphology
    ommatidia shape irregular - Number of animals showing the phenotype: 6

    Comment: black border around the eye is missing. surface of the eye appears plain. the GFP expression of the ommatidia points to a reduced number of ommatidia as well as a malformation of the ommatidia

    antenna shortened - Number of animals showing the phenotype: 6

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004992 RA
      MATKRNLPP PNSSGKRFK NDKIFRPPV GDLNPTDDA 
LIFQELELD HYISAPYPG MPGAQTGTV PVIRMFGIT 
KVGNSVCCH IHGFSPYFY INLPNDFTQ ADLSRFKEK 
LNEAVVSDM RSNRDNITE AVLMVELVR GKSLVEYQG 
EDDNNFAKI TLALPKFIA ASKRLLSTT VVYQPLAHH 
TFHFFEANV DIETRFMVD TNILGCCWI ELPAGKWFK 
RPENKFPVT SRCQIEVDI SWTDFISHS PEGEWSPVA 
RFRIHSFDI ECAGRKGIF PEPNVDPII QIANVIKLH 
GDEDVVTRN IFTLNSCAP IGHAEVRSF DTEAEMLEE 
WAEFVRETD PDIFTGYNI NNFDFPYLI ERANHLKLK 
RFDYLGRIL DIRSSIKET VTQTKIGKR TFKSINFEG 
RVAYDMLMV IKRDFKLRS YTLNSVSQE ILGEQKEDV 
HYSVITDLQ NGDEQTRRR LAVYCLKDA DLPVRILST 
VRSFTNDVE MARVTGVPI TSLLTKGEQ VKVVAQLLK 
HARAAGYFM PTHQGAPSS EQYEGATVI EPRRGYYTD 
PIATLDFSS LYPSIMIAH NLCYTTLIK PSIKEKLCL 
SDEQVTTTP ANCMFVKSS VRPGLLPHI LQHLLAARK 
KTKAELKEA TDPVVRAVL DGRQLAYKI SANSVYGFT 
GAQVGKLPC LEISSSVTA YGRTMIEQT KQEVEQHYR 
IENGYESDA MVIYGDTDS VMVNFRVKS LERSMELGR 
EAADLISAK FIKPIKLEF EKVYWPYLL INKKRYAGL 
YFTKPDKYD KMDCKGIET VRRDNCTLV VDVINSCLR 
KLLIDKDPD GAVNYAKKV ISDLLQNNV DISQLVITK 
ELTKNDYAA KQAHVELSK KMTKRDPGN APKLGDRIP 
YVIIAGTKN SKAFEKAED PIYVLENNI PIDSQYYLQ 
NQLSKPLIR IFQPILGDS AESILLRGE HTRTKTMVT 
SRVGALSAF TKKKETCLG CRSVLPAGY EAEAVCSHC 
KPKEATLYQ QELGHHRML ENRFSELFT ECQRCQGSL 
HEEILCTSR DCPIFYIRK KVQMELDAS KGKISRFGD 
PIMEEW
    CDS sequence
    • >TC004992 RA
      atggcaaca aaacgcaat cttccgcct ccgaattca 
tcagggaag aggttcaag aacgacaaa atttttcgc 
cccccagtt ggcgattta aaccccact gatgatgca 
ctaattttt caagaatta gagttggat cattacatt 
tcagcccct tatcctgga atgccaggg gctcaaact 
ggtactgtt cctgtgatt cgaatgttt ggtattaca 
aaagtgggc aatagtgtg tgttgtcat attcatggt 
ttttctcca tacttttac attaatctg ccgaatgat 
tttacacaa gcggatttg tcccgtttc aaggaaaag 
ttaaatgaa gctgtggta agcgatatg cgctcaaac 
cgtgacaac ataaccgaa gcagtttta atggtggaa 
ctggttaga ggaaaatct ctcgtagag tatcaagga 
gaggacgac aacaacttt gctaaaata accctagcc 
ttaccgaaa tttattgct gcatctaaa cgtctccta 
agcactaca gtcgtctat caaccgctt gcccatcac 
acgtttcat ttctttgaa gcaaatgtg gatattgaa 
acgcgtttt atggttgat acgaatatt ttgggttgt 
tgctggatt gagttgcca gcaggcaaa tggttcaaa 
cgaccagaa aataagttc cctgtaact tcacgttgc 
caaatagaa gtggacatc tcatggact gactttatt 
tcacattca ccagaaggt gaatggtca ccagtggct 
cgatttcgt attcatagt ttcgatatt gaatgtgct 
ggaagaaaa gggattttt ccggagccg aacgttgat 
cccattatt caaattgcc aacgtgatt aagttacat 
ggtgacgag gatgtggtt actcgaaat attttcact 
ttaaacagt tgcgcaccc ataggacat gctgaggtt 
cgtagtttc gacaccgaa gcggaaatg ttggaggaa 
tgggcggaa tttgtaaga gaaacagat ccagacata 
ttcaccggt tacaacata aataacttt gactttccg 
tatctgatt gaacgtgca aatcacttg aaattaaag 
cgtttcgat tatttggga cgtattctt gacattagg 
tctagcata aaagaaaca gtcacgcaa acaaaaatc 
ggtaaaaga acattcaag tcgattaat tttgaagga 
cgcgtagca tatgatatg ttaatggta attaagcgc 
gattttaag cttcgatca tatacgtta aacagcgtt 
tctcaagaa atattagga gagcagaag gaagatgta 
cattatagt gttattacg gatttgcaa aacggcgac 
gaacagaca agaagaaga cttgcagtg tactgttta 
aaagatgcg gatttacca gttagaata ctgagtaca 
gttcgaagt tttaccaat gatgtcgaa atggcaaga 
gtcaccggt gtacctata actagcttg ttgacaaaa 
ggggagcaa gttaaagtt gtggcccaa ttattgaaa 
catgctcga gctgctgga tatttcatg ccaacacat 
caaggagca ccttcttct gaacagtat gaaggagct 
acagttata gaaccgaga cgaggttac tacactgat 
ccaatagcc actcttgat ttcagttct ctatatccc 
agtattatg atagcacat aatttgtgt tatacgact 
ttgattaaa cccagtatc aaagaaaag ctctgttta 
agtgacgag caagttaca accactcca gcaaattgt 
atgtttgtg aagtcatcg gttagaccc ggtttgtta 
ccacacatc ttgcaacat cttcttgca gcgcgtaaa 
aaaaccaaa gctgagtta aaggaagca acagatcct 
gttgtaaga gccgttttg gacggtcgg caattggct 
tacaaaatt tcagctaac tcggtttat ggttttacg 
ggagctcaa gtcggaaaa ttgccttgt ttggaaatt 
tcaagtagt gtaactgct tatggtcga acaatgatt 
gaacagacg aaacaagaa gttgaacaa cattatcgc 
attgaaaat ggttacgaa tccgatgcg atggttatt 
tatggggac actgactcg gttatggtt aacttccga 
gtgaagtct ttagaaaga agtatggag ctggggagg 
gaagcagct gatttgata agtgccaag tttataaag 
cccatcaag ttagaattt gaaaaggtt tattggcca 
tacttattg attaataaa aagcgttat gctggattg 
tattttaca aaaccggat aaatacgac aaaatggat 
tgcaaaggt attgaaacc gtacgaagg gataattgt 
acattggtt gttgatgta attaattcg tgtctgcga 
aaacttctg attgataaa gatccagat ggtgctgtt 
aattacgcc aaaaaagtt atttcggat ttgctccaa 
aacaatgta gatatttct caattggtg attacgaaa 
gaacttaca aaaaatgat tacgctgcc aaacaggca 
catgttgaa ttatcgaaa aaaatgact aaacgagat 
cctggaaat gctcctaaa ttgggagat cgcatacct 
tatgttata attgcagga acgaagaat tccaaagct 
tttgaaaaa gcagaggat cctatctac gttttggag 
aacaacatt ccaattgat tcgcagtat tacttgcaa 
aatcaattg tctaaacct ttgattcgc atttttcaa 
ccgattttg ggagacagt gctgagtca attttgcta 
cggggtgaa cacacacgg actaaaaca atggtcact 
tctcgagtg ggtgcttta tcagcattt actaaaaag 
aaagagact tgtctgggg tgtcgttcg gttttacca 
gctggttat gaagcagaa gctgtttgt agtcactgt 
aaaccaaag gaggcaacg ttgtatcaa caggaattg 
ggacatcac agaatgtta gaaaatcgt ttttcggaa 
ctttttacc gagtgccag agatgccag ggatctttg 
catgaggag attttgtgc acaagtcgt gactgtcca 
attttttat atacggaag aaggttcaa atggaattg 
gatgcaagc aaagggaaa atttcgaga tttggtgat 
cctattatg gaggaatgg tga
    mRNA sequence
    • >TC004992 RA
      ggaagaaac tgaaatatc ttgtttgga gtccgtttg 
tttacagca aaatggcaa caaaacgca atcttccgc 
ctccgaatt catcaggga agaggttca agaacgaca 
aaatttttc gccccccag ttggcgatt taaacccca 
ctgatgatg cactaattt ttcaagaat tagagttgg 
atcattaca tttcagccc cttatcctg gaatgccag 
gggctcaaa ctggtactg ttcctgtga ttcgaatgt 
ttggtatta caaaagtgg gcaatagtg tgtgttgtc 
atattcatg gtttttctc catactttt acattaatc 
tgccgaatg attttacac aagcggatt tgtcccgtt 
tcaaggaaa agttaaatg aagctgtgg taagcgata 
tgcgctcaa accgtgaca acataaccg aagcagttt 
taatggtgg aactggtta gaggaaaat ctctcgtag 
agtatcaag gagaggacg acaacaact ttgctaaaa 
taaccctag ccttaccga aatttattg ctgcatcta 
aacgtctcc taagcacta cagtcgtct atcaaccgc 
ttgcccatc acacgtttc atttctttg aagcaaatg 
tggatattg aaacgcgtt ttatggttg atacgaata 
ttttgggtt gttgctgga ttgagttgc cagcaggca 
aatggttca aacgaccag aaaataagt tccctgtaa 
cttcacgtt gccaaatag aagtggaca tctcatgga 
ctgacttta tttcacatt caccagaag gtgaatggt 
caccagtgg ctcgatttc gtattcata gtttcgata 
ttgaatgtg ctggaagaa aagggattt ttccggagc 
cgaacgttg atcccatta ttcaaattg ccaacgtga 
ttaagttac atggtgacg aggatgtgg ttactcgaa 
atattttca ctttaaaca gttgcgcac ccataggac 
atgctgagg ttcgtagtt tcgacaccg aagcggaaa 
tgttggagg aatgggcgg aatttgtaa gagaaacag 
atccagaca tattcaccg gttacaaca taaataact 
ttgactttc cgtatctga ttgaacgtg caaatcact 
tgaaattaa agcgtttcg attatttgg gacgtattc 
ttgacatta ggtctagca taaaagaaa cagtcacgc 
aaacaaaaa tcggtaaaa gaacattca agtcgatta 
attttgaag gacgcgtag catatgata tgttaatgg 
taattaagc gcgatttta agcttcgat catatacgt 
taaacagcg tttctcaag aaatattag gagagcaga 
aggaagatg tacattata gtgttatta cggatttgc 
aaaacggcg acgaacaga caagaagaa gacttgcag 
tgtactgtt taaaagatg cggatttac cagttagaa 
tactgagta cagttcgaa gttttacca atgatgtcg 
aaatggcaa gagtcaccg gtgtaccta taactagct 
tgttgacaa aaggggagc aagttaaag ttgtggccc 
aattattga aacatgctc gagctgctg gatatttca 
tgccaacac atcaaggag caccttctt ctgaacagt 
atgaaggag ctacagtta tagaaccga gacgaggtt 
actacactg atccaatag ccactcttg atttcagtt 
ctctatatc ccagtatta tgatagcac ataatttgt 
gttatacga ctttgatta aacccagta tcaaagaaa 
agctctgtt taagtgacg agcaagtta caaccactc 
cagcaaatt gtatgtttg tgaagtcat cggttagac 
ccggtttgt taccacaca tcttgcaac atcttcttg 
cagcgcgta aaaaaacca aagctgagt taaaggaag 
caacagatc ctgttgtaa gagccgttt tggacggtc 
ggcaattgg cttacaaaa tttcagcta actcggttt 
atggtttta cgggagctc aagtcggaa aattgcctt 
gtttggaaa tttcaagta gtgtaactg cttatggtc 
gaacaatga ttgaacaga cgaaacaag aagttgaac 
aacattatc gcattgaaa atggttacg aatccgatg 
cgatggtta tttatgggg acactgact cggttatgg 
ttaacttcc gagtgaagt ctttagaaa gaagtatgg 
agctgggga gggaagcag ctgatttga taagtgcca 
agtttataa agcccatca agttagaat ttgaaaagg 
tttattggc catacttat tgattaata aaaagcgtt 
atgctggat tgtatttta caaaaccgg ataaatacg 
acaaaatgg attgcaaag gtattgaaa ccgtacgaa 
gggataatt gtacattgg ttgttgatg taattaatt 
cgtgtctgc gaaaacttc tgattgata aagatccag 
atggtgctg ttaattacg ccaaaaaag ttatttcgg 
atttgctcc aaaacaatg tagatattt ctcaattgg 
tgattacga aagaactta caaaaaatg attacgctg 
ccaaacagg cacatgttg aattatcga aaaaaatga 
ctaaacgag atcctggaa atgctccta aattgggag 
atcgcatac cttatgtta taattgcag gaacgaaga 
attccaaag cttttgaaa aagcagagg atcctatct 
acgttttgg agaacaaca ttccaattg attcgcagt 
attacttgc aaaatcaat tgtctaaac ctttgattc 
gcatttttc aaccgattt tgggagaca gtgctgagt 
caattttgc tacggggtg aacacacac ggactaaaa 
caatggtca cttctcgag tgggtgctt tatcagcat 
ttactaaaa agaaagaga cttgtctgg ggtgtcgtt 
cggttttac cagctggtt atgaagcag aagctgttt 
gtagtcact gtaaaccaa aggaggcaa cgttgtatc 
aacaggaat tgggacatc acagaatgt tagaaaatc 
gtttttcgg aacttttta ccgagtgcc agagatgcc 
agggatctt tgcatgagg agattttgt gcacaagtc 
gtgactgtc caatttttt atatacgga agaaggttc 
aaatggaat tggatgcaa gcaaaggga aaatttcga 
gatttggtg atcctatta tggaggaat ggtgatgtt 
ttttttaca tgattttgt attgttagg ttgaacgcc 
ttttacttt aaatttatg cttttataa taaaaaagt 
ttcaattat

    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