Status
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Gene information
General information
TC004717 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: 4506885..4513893
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
    		TC004717
    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_02946

    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: 30.0% (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: 1 (9 dpi)
    Days post injection

    Fertility
    vitellogenic egg chamber early number decreased - Number of animals showing the phenotype: 4

    vitellogenic egg chamber late number decreased - Number of animals showing the phenotype: 4
    tropharium potentiallystructure irregular - Number of animals showing the phenotype: 4
    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
    • >TC004717 RA
      MERSRDYSP RGRSMSISP EYKGSPDYR SRSPSRSPH 
YKRHNGHRS PTFHSSKKF HHEYSDERG KNGSDYESD 
REYRRESSW DGDRRSRSR SPDYSRDRD RSKHYRSRD 
RDRDHHRSR GKRSRSGSR WERRSEDRK TRDRDRSYR 
DDDRDSVDS ERSPNGAVI GASGSEIIG YKSQPPNNT 
IMIRGLAQH ISENDIRQD IIHCGLMPK DIRLIRKKD 
TGTSRGFAF VEFSTLGEA IRWMDMKQG VLMLQEQYR 
AIMQYSIPK DVCANSEKP PSHKASADW FCIKCGAQN 
FKRRDNCFK CHASRMESE EGGSGSDEI CTYTTKTIM 
IRNLDALTT EDSVMSVLN TVIPDLVKS ISAVCIGRD 
PLTSTSRGI CYLGTESTI DALAIYGAL SNLSSPLTI 
DGKTVILSY CKYNMGDNK KAYSQADNV AFPNASVPS 
TYAMTDVES LAEYAARRY AKTPSEYMH YIKYYRNYF 
TQQISAGNS ITLHQENQM DAANAAAAV AQSAIQQMH 
ANKNFYDTT HMSIPNGTD GKRYPVPDV SKYTYDKTT 
GYQYDASTG LYYDPNSNY YWNSVIQKY LYWDQEKMT 
YVLAPMTYE SYTGQQTMA ASTGSQEPE AKKPKAEKQ 
DKVKVAKKI AKDMERWAK TLNQKKEMS FARANSDMG 
ASSSGSASA DVGFSVLEK KNTSQLVPG FYKNDSDES 
IPAATAPLV AAYGGESDS SGEEEIDEI ELLDYAKLI 
CNLCKRQLG SAEALTKHA KLSALHKQN LEARKKTKK 
LEGTKEKVV YRDRAKERR MKYGDPDEP QPSKLKEKY 
LKSRELAEA PVAAASVSE PIGAENVGN RLLQKMGWT 
EGQGLGKQN QGRTTIIQA EQHTSTVGL GNKVAGYTA 
LAGESYKDC VKKMMYARY QELTEKEN
    CDS sequence
    • >TC004717 RA
      atggaaaga tctagagat tattcacct agaggacga 
agtatgtcc atatcacca gagtacaag ggttccccc 
gattataga agcaggtcg ccgtcgcgg tccccgcac 
tacaaaaga cacaacggg cacagatca cccacgttt 
cacagctca aaaaaattt catcatgaa tattccgac 
gaaagagga aaaaatggt agtgattat gagagtgac 
cgcgaatac cgaagagag tcttcttgg gatggtgac 
cggaggagt cgttcacga tctccggac tattcaaga 
gatcgggat agaagcaaa cattataga agtagggac 
agggatagg gaccaccat aggtctaga gggaaaagg 
tcgcgaagt ggttcacgg tgggaacga agatcagaa 
gatagaaaa acacgtgat cgagacagg tcatatcgc 
gatgatgat agggacagt gtggatagt gaacgtagc 
cctaacgga gctgttatt ggagctagc gggtctgaa 
ataataggc tacaaaagt cagcccccc aacaacacc 
atcatgatt cgcggactg gcgcagcac atctccgaa 
aacgatatt cgtcaggat attattcac tgtggtttg 
atgccgaag gacattcgt ctcatcaga aaaaaagac 
acaggtact tcacgtggt ttcgccttt gtcgagttt 
tcaacactt ggtgaggcc attcggtgg atggacatg 
aaacagggt gttttaatg ctgcaagaa caatatcgt 
gctataatg cagtatagc attcccaaa gacgtctgc 
gcgaattca gaaaaacca ccaagtcat aaggcttca 
gccgactgg ttttgcata aaatgtggc gcccagaac 
ttcaaaaga agggacaat tgtttcaaa tgccacgct 
tcacgaatg gaaagcgaa gaaggtggt agcggaagc 
gacgaaata tgcacttac accaccaaa accatcatg 
atacgcaat ctagatgcc ctgacaacg gaggattct 
gttatgtca gttcttaat actgtcatt cctgattta 
gtcaagtca atatcagca gtttgcatt ggtcgtgac 
cctttgact tcaacctcc agaggcatt tgctacctt 
ggaacagaa agcacgata gatgctttg gccatttac 
ggagctcta agcaattta tccagcccc ctcactatt 
gacggaaaa acagtgatt ttgtcgtat tgtaagtac 
aacatgggt gacaacaag aaagcctat tctcaggct 
gataacgtt gcttttccc aacgcatcc gtcccgagc 
acttacgca atgaccgat gtggaaagt ctagcagaa 
tatgctgcg agacgttac gctaaaact ccgagcgaa 
tacatgcat tacattaag tattaccgc aactacttc 
acccaacaa atcagtgcg ggcaactcg attacactc 
catcaagaa aaccaaatg gatgcagca aacgctgca 
gctgctgtc gcccaatcc gccatccaa caaatgcat 
gctaataaa aatttctac gatactacc cacatgtca 
attccaaac ggaaccgat ggcaagaga tatcctgtt 
cctgacgtt tcaaaatat acttacgac aaaaccact 
gggtatcaa tatgacgca agtacgggt ctatattac 
gatccgaat tcaaactat tactggaat agcgtcatt 
caaaaatac ctctactgg gaccaagaa aaaatgacc 
tacgtgttg gcccccatg acttacgaa agttacacg 
gggcagcaa accatggcc gcgtcgacc ggctcacaa 
gaaccggaa gcgaaaaaa ccgaaagcg gaaaaacag 
gacaaagtc aaagtcgcc aagaagatc gccaaagac 
atggaaagg tgggcgaag acgctaaac cagaagaag 
gagatgtcc ttcgcgcgt gctaactcc gacatgggc 
gccagcagt agcggtagt gcgtcagcc gatgtcggt 
ttttccgtc ctggaaaag aaaaacacg agccaattg 
gttccaggt ttttataaa aatgactct gacgaatcc 
attcctgca gccaccgct cctctcgtt gcagcctac 
ggtggcgaa agcgattcc tccggagaa gaagaaatc 
gacgagatt gagctccta gattacgcg aaacttatc 
tgtaacctc tgcaaacgt caattaggg tccgctgaa 
gctttaact aaacacgcc aaactatcc gccttgcac 
aagcagaac ctggaagcg cgaaagaag acgaagaag 
ctcgaaggc actaaagaa aaggtcgtt tacagagac 
cgggctaag gagcgaaga atgaaatac ggtgatccg 
gacgagcca caacccagc aaactcaaa gaaaagtat 
ttgaagtcg agggaattg gctgaagcg ccggtcgcc 
gcagcgtcg gtttcggaa ccgatcggg gccgaaaat 
gtcggcaat agactacta caaaaaatg ggctggact 
gagggccaa ggtttaggg aaacaaaat caaggaaga 
accacaatt attcaggcg gaacagcac actagcacc 
gtagggcta ggaaacaaa gttgcagga tatacagct 
ctggcagga gaatcgtac aaagactgt gttaaaaaa 
atgatgtat gcacgttac caggagttg acagaaaag 
gaaaactaa
    mRNA sequence
    • >TC004717 RA
      ggctggcgc tttgaatgg gcgtgggaa tttttccca 
ggctttttt tgccaactg atgtcgtaa attgcaatt 
tttgcgatt gatttttgt cgattattt tataaaatt 
aagggtcct ccagggggg acatgcgcc ccacgttgc 
gctctctag tgcgcgttt ggagaagtc cacttggtg 
ccgattgtt gttggagag agaagttcc gaggataaa 
ttgttggcg tccttgtct aggtagtca aagtggtcg 
tctacagag gatgataac aacgtgacg atgccagtt 
tttgagtgt tgacgcgtt ggatggatt ttaacaatt 
ttcagaact tatggttga aattatgaa ctgagagtt 
tccgacttg gagcactcc aaacgcgcc gaatgtgta 
cagaattgc ggtaaataa aaatggaaa gatctagag 
attattcac ctagaggac gaagtatgt ccatatcac 
cagagtaca agggttccc ccgattata gaagcaggt 
cgccgtcgc ggtccccgc actacaaaa gacacaacg 
ggcacagat cacccacgt ttcacagct caaaaaaat 
ttcatcatg aatattccg acgaaagag gaaaaaatg 
gtagtgatt atgagagtg accgcgaat accgaagag 
agtcttctt gggatggtg accggagga gtcgttcac 
gatctccgg actattcaa gagatcggg atagaagca 
aacattata gaagtaggg acagggata gggaccacc 
ataggtcta gagggaaaa ggtcgcgaa gtggttcac 
ggtgggaac gaagatcag aagatagaa aaacacgtg 
atcgagaca ggtcatatc gcgatgatg atagggaca 
gtgtggata gtgaacgta gccctaacg gagctgtta 
ttggagcta gcgggtctg aaataatag gctacaaaa 
gtcagcccc ccaacaaca ccatcatga ttcgcggac 
tggcgcagc acatctccg aaaacgata ttcgtcagg 
atattattc actgtggtt tgatgccga aggacattc 
gtctcatca gaaaaaaag acacaggta cttcacgtg 
gtttcgcct ttgtcgagt tttcaacac ttggtgagg 
ccattcggt ggatggaca tgaaacagg gtgttttaa 
tgctgcaag aacaatatc gtgctataa tgcagtata 
gcattccca aagacgtct gcgcgaatt cagaaaaac 
caccaagtc ataaggctt cagccgact ggttttgca 
taaaatgtg gcgcccaga acttcaaaa gaagggaca 
attgtttca aatgccacg cttcacgaa tggaaagcg 
aagaaggtg gtagcggaa gcgacgaaa tatgcactt 
acaccacca aaaccatca tgatacgca atctagatg 
ccctgacaa cggaggatt ctgttatgt cagttctta 
atactgtca ttcctgatt tagtcaagt caatatcag 
cagtttgca ttggtcgtg accctttga cttcaacct 
ccagaggca tttgctacc ttggaacag aaagcacga 
tagatgctt tggccattt acggagctc taagcaatt 
tatccagcc ccctcacta ttgacggaa aaacagtga 
ttttgtcgt attgtaagt acaacatgg gtgacaaca 
agaaagcct attctcagg ctgataacg ttgcttttc 
ccaacgcat ccgtcccga gcacttacg caatgaccg 
atgtggaaa gtctagcag aatatgctg cgagacgtt 
acgctaaaa ctccgagcg aatacatgc attacatta 
agtattacc gcaactact tcacccaac aaatcagtg 
cgggcaact cgattacac tccatcaag aaaaccaaa 
tggatgcag caaacgctg cagctgctg tcgcccaat 
ccgccatcc aacaaatgc atgctaata aaaatttct 
acgatacta cccacatgt caattccaa acggaaccg 
atggcaaga gatatcctg ttcctgacg tttcaaaat 
atacttacg acaaaacca ctgggtatc aatatgacg 
caagtacgg gtctatatt acgatccga attcaaact 
attactgga atagcgtca ttcaaaaat acctctact 
gggaccaag aaaaaatga cctacgtgt tggccccca 
tgacttacg aaagttaca cggggcagc aaaccatgg 
ccgcgtcga ccggctcac aagaaccgg aagcgaaaa 
aaccgaaag cggaaaaac aggacaaag tcaaagtcg 
ccaagaaga tcgccaaag acatggaaa ggtgggcga 
agacgctaa accagaaga aggagatgt ccttcgcgc 
gtgctaact ccgacatgg gcgccagca gtagcggta 
gtgcgtcag ccgatgtcg gtttttccg tcctggaaa 
agaaaaaca cgagccaat tggttccag gtttttata 
aaaatgact ctgacgaat ccattcctg cagccaccg 
ctcctctcg ttgcagcct acggtggcg aaagcgatt 
cctccggag aagaagaaa tcgacgaga ttgagctcc 
tagattacg cgaaactta tctgtaacc tctgcaaac 
gtcaattag ggtccgctg aagctttaa ctaaacacg 
ccaaactat ccgccttgc acaagcaga acctggaag 
cgcgaaaga agacgaaga agctcgaag gcactaaag 
aaaaggtcg tttacagag accgggcta aggagcgaa 
gaatgaaat acggtgatc cggacgagc cacaaccca 
gcaaactca aagaaaagt atttgaagt cgagggaat 
tggctgaag cgccggtcg ccgcagcgt cggtttcgg 
aaccgatcg gggccgaaa atgtcggca atagactac 
tacaaaaaa tgggctgga ctgagggcc aaggtttag 
ggaaacaaa atcaaggaa gaaccacaa ttattcagg 
cggaacagc acactagca ccgtagggc taggaaaca 
aagttgcag gatatacag ctctggcag gagaatcgt 
acaaagact gtgttaaaa aaatgatgt atgcacgtt 
accaggagt tgacagaaa aggaaaact aatcaggtt 
aatcagttg tttcactga cttttgtca agtgccaag 
cagtgttaa ttaattttt catccaaac atcatgtta 
ataaattag aagtaagtt a

    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