Status
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Gene information
General information
TC016289 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_007424.3: 10244782..10252460
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
    		TC016289
    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
    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_06476

    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

    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 delayed (still larva) - Number of animals showing the phenotype: 9 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 9 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC016289 RA
      MGDNDPPVK RYRRDEKDQ EKSDSDDNY VPYVPVKER 
KKQKLLKLG RLGQLKESE LNKPKSSSE NETNDDEEE 
DEVWGRKNN ISLLDQHTE LKKLAEAKK VSAVERQLK 
KEEEILEIV AEKKALMGV SELAKGIQY SDPIKTSWR 
PPRYVLAMP ENRHEKIRN ELRILVEGE DIPPPLKTF 
REMKLHEGI ISGLKEKKI KKPTPIQIQ GIPTVLSGR 
DMIGIAFTG SGKTLVFVL PLIMFCLEQ EVKLPFIKN 
EGPYGLIIC PSRELAKQT FDIIQHFCN SLRKHGMPE 
IRTSLAIGG VPVSEAVDV IQRGVHIMV ATPGRLMDM 
LEKKIVKLS VCRYLCMDE ADRMIDLGF EEDVRTIFS 
YFNGQRQTL LFSATMPKK IQNFARSAL VKPVTINVG 
RAGAASMNV IQEVEYVKQ EAKVVYLLE CLQKTPPPV 
LIFAEKKQD VDAIHEYLL LKGVEAVAI HGGKDQEER 
SRSVEAFRK HEKDVLVAT DVASKGLDF PDIQHVINY 
DMPDDVENY VHRIGRTGR SGKQGLATT FINKSNDES 
VLLDLKHLL MEAKQKVPA FLSELCSES EKYLDLGDE 
RGCSYCGGL GHRITDCPK LEALQNKQA SNIGRRDYL 
ANTAADY
    CDS sequence
    • >TC016289 RA
      atgggtgat aatgatcct ccagtaaag agatacaga 
cgtgacgag aaggatcaa gaaaaatca gattcggac 
gataattac gtcccatac gtgccagtc aaagaacgc 
aagaagcaa aagcttttg aaactcgga cgattaggc 
cagctaaaa gagtctgaa ttgaacaaa ccaaaatca 
tctagcgag aacgaaaca aacgatgac gaagaagag 
gatgaagta tgggggcgc aagaacaac atttcactt 
ttggaccaa catacagaa cttaaaaaa ttggcagaa 
gccaaaaag gtaagcgcc gtggaacgc caattaaaa 
aaagaagag gaaattctg gaaatagta gcggaaaag 
aaagccttg atgggcgtt tctgagttg gccaaaggc 
atacaatac agcgacccg attaaaacc agttggcga 
ccccctcgt tacgtgctt gcaatgccg gaaaatcgc 
catgaaaaa atccgaaac gaactccgg attctagtc 
gaaggtgaa gacattcct ccaccactt aaaaccttt 
cgcgaaatg aaactacac gaagggatc ataagcgga 
ctgaaagaa aagaaaatt aagaaacca acaccgatt 
cagattcaa ggcattcca acagtttta tcaggtcgg 
gatatgatt gggatagca ttcacgggt tcaggcaaa 
acactagtt tttgttttg cctctcatc atgttttgt 
ttggaacag gaagttaaa ttgcccttt attaaaaat 
gaagggccc tatggactt ataatttgc ccttcgcga 
gagttggca aagcaaact ttcgatatc atacaacat 
ttttgtaac agtctgagg aagcatgga atgcccgaa 
attaggacg tctttagcc attggtgga gtgcctgtt 
tcagaagct gttgatgtt atacagaga ggtgtgcat 
attatggtc gccactcca ggacgatta atggacatg 
cttgagaaa aaaatcgta aaactatcg gtttgtcga 
tatttgtgt atggatgaa gcggatcgt atgattgac 
ttgggtttc gaagaggac gttagaaca attttttca 
tattttaat ggccaaagg cagactttg cttttctca 
gctactatg cccaagaaa atacaaaat tttgcacgg 
tcagcctta gtcaaacct gtaacgatc aacgtagga 
cgggctgga gcagcctca atgaatgtt atccaggag 
gtggaatac gttaaacaa gaagcaaaa gtggtttac 
ttgctagaa tgtttgcaa aaaacaccg ccacccgtt 
ttaattttc gcggagaaa aaacaagac gtggatgcc 
attcatgaa taccttctt ttgaaagga gttgaagct 
gttgcaatt catggtggc aaagaccaa gaagaacgt 
tcgagatcc gttgaagca ttcaggaaa cacgaaaaa 
gatgttctt gtagctaca gatgtggcc tctaaagga 
ttagatttt cctgatatc caacatgtt ataaattac 
gatatgccc gacgatgtg gaaaattat gttcaccga 
attgggaga actggcaga tccggcaaa caaggccta 
gctaccaca ttcataaac aaatccaac gacgaatct 
gtcctcctc gacctgaaa cacctcctt atggaagcc 
aaacaaaag gtccccgct ttcttgagc gaattatgc 
tcagaaagt gagaaatat ctagacttg ggagatgag 
agaggttgt agctattgc ggaggtttg ggtcacaga 
atcaccgac tgtccgaaa ttggaagca cttcaaaac 
aaacaagcg tcaaacatt ggcaggagg gattatttg 
gccaatact gcagcagat tattag
    mRNA sequence
    • >TC016289 RA
      ggcgagaaa taatacagt ttgacaagg gggcgacct 
tgagcataa cctcaaaaa atacgtttt gtttatgtg 
tgaatttct tgaaaatgg gtgataatg atcctccag 
taaagagat acagacgtg acgagaagg atcaagaaa 
aatcagatt cggacgata attacgtcc catacgtgc 
cagtcaaag aacgcaaga agcaaaagc ttttgaaac 
tcggacgat taggccagc taaaagagt ctgaattga 
acaaaccaa aatcatcta gcgagaacg aaacaaacg 
atgacgaag aagaggatg aagtatggg ggcgcaaga 
acaacattt cacttttgg accaacata cagaactta 
aaaaattgg cagaagcca aaaaggtaa gcgccgtgg 
aacgccaat taaaaaaag aagaggaaa ttctggaaa 
tagtagcgg aaaagaaag ccttgatgg gcgtttctg 
agttggcca aaggcatac aatacagcg acccgatta 
aaaccagtt ggcgacccc ctcgttacg tgcttgcaa 
tgccggaaa atcgccatg aaaaaatcc gaaacgaac 
tccggattc tagtcgaag gtgaagaca ttcctccac 
cacttaaaa cctttcgcg aaatgaaac tacacgaag 
ggatcataa gcggactga aagaaaaga aaattaaga 
aaccaacac cgattcaga ttcaaggca ttccaacag 
ttttatcag gtcgggata tgattggga tagcattca 
cgggttcag gcaaaacac tagtttttg ttttgcctc 
tcatcatgt tttgtttgg aacaggaag ttaaattgc 
cctttatta aaaatgaag ggccctatg gacttataa 
tttgccctt cgcgagagt tggcaaagc aaactttcg 
atatcatac aacattttt gtaacagtc tgaggaagc 
atggaatgc ccgaaatta ggacgtctt tagccattg 
gtggagtgc ctgtttcag aagctgttg atgttatac 
agagaggtg tgcatatta tggtcgcca ctccaggac 
gattaatgg acatgcttg agaaaaaaa tcgtaaaac 
tatcggttt gtcgatatt tgtgtatgg atgaagcgg 
atcgtatga ttgacttgg gtttcgaag aggacgtta 
gaacaattt tttcatatt ttaatggcc aaaggcaga 
ctttgcttt tctcagcta ctatgccca agaaaatac 
aaaattttg cacggtcag ccttagtca aacctgtaa 
cgatcaacg taggacggg ctggagcag cctcaatga 
atgttatcc aggaggtgg aatacgtta aacaagaag 
caaaagtgg tttacttgc tagaatgtt tgcaaaaaa 
caccgccac ccgttttaa ttttcgcgg agaaaaaac 
aagacgtgg atgccattc atgaatacc ttcttttga 
aaggagttg aagctgttg caattcatg gtggcaaag 
accaagaag aacgttcga gatccgttg aagcattca 
ggaaacacg aaaaagatg ttcttgtag ctacagatg 
tggcctcta aaggattag attttcctg atatccaac 
atgttataa attacgata tgcccgacg atgtggaaa 
attatgttc accgaattg ggagaactg gcagatccg 
gcaaacaag gcctagcta ccacattca taaacaaat 
ccaacgacg aatctgtcc tcctcgacc tgaaacacc 
tccttatgg aagccaaac aaaaggtcc ccgctttct 
tgagcgaat tatgctcag aaagtgaga aatatctag 
acttgggag atgagagag gttgtagct attgcggag 
gtttgggtc acagaatca ccgactgtc cgaaattgg 
aagcacttc aaaacaaac aagcgtcaa acattggca 
ggagggatt atttggcca atactgcag cagattatt 
agattttaa taacatttt attaatatt cccaaatct 
tacaatata aaatattac atttacgga aaatattat 
gatttatat tatgtatta caaattgaa ttcattctt 
aaaaaaatc gtaagcttt atttcgtta agcatgtgc 
gccaataac aacttctgt agcatgttt ctataacga 
gtgacaaaa aaatctaca ttgactaga agtattaac 
cacgtagtt tcaaaacat ttaagcaca gctttctta 
atcagagaa ggaagtgtt tcttcactc tgcattttt 
tacaaaaaa aactcttgt cttgtttga ttagacgga 
tccacatca tttccccaa acactgcgc aactgagaa 
agattttga tcaaaatta aaaacggtc aatgatgtg 
aaaataatg tctctaacg ctaggggca cacttaaat 
tgtaatgtc ggtggaaca aattcagga taaattata 
gcttattag actagatag ctacagccg tacgttaaa 
aaaaaatgc ttttgagta gctttggaa aaaattaaa 
atatttaat agcaaacgc tgatttttg tgtgacaat 
tagtttttg agatatagt aaaaagtac ttataataa 
acagactca ctgtcgcca acattcggc aagacatat 
attttttaa atactgtta atattacaa tatatatca 
ctatttcat ataattcat acgaaaatg tgccaatga 
gatggtttc gaagttttt aaattgaga aactgttaa 
tttttgtgg agcaatggt atggatatt tctgtttat 
taataacta ttttattca tagggtgtt ttagaaaca 
aaattaata gtaatgtaa taataatga ataataata 
ataaataac aaaactatt 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