Status
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Gene information
General information
TC013858 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_007420.3: 2789594..2794608
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
    		TC013858
    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 *
    {{ 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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_05513

    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: 40.0% (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

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

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): more than 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     larva dorsalnot closed - Penetrance (percentage of animals/eggs on slide): less than 30%

    Comment:
    larva appendages shape irregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    larva dorsalirregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    larva ventralirregular - Penetrance (percentage of animals/eggs on slide): more than 80%

    larva appendages distal decreased - Penetrance (percentage of animals/eggs on slide): more than 80%
    legs dorsoventral-axis irregular -
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): less than 30%
    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: 50.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    pupal molt delayed (still larva) - Number of animals showing the phenotype: 5 (11 dpi)
    Days post injection

    larva lethality late (L7) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013858 RA
      MAAVLKKRA LAEFTQTIQ ETVPFQPIK KLKLVKKPS 
TGTGNSSLA LISCLEGCK SSSEALRTL LRVSDTFEL 
EASDIPEAV KKLSDHFKN EPESAVRVK ILSLLCDIG 
HLPNADVVS IIDETILLL KNDHSHKVI AQGMNTVLK 
LGKLVSDNV IALHQKLVE VAKSYLKDV SHAVKRKCL 
EIIGVHTPV CTGAEAEKL MVLISSYFN HDDARVRSQ 
AFSTIITLH ERNFKINPD IYIDVCDAL KDDYEIVRQ 
VVLKLVCLL GNTFPENEV VLPGSEHEI RLIDDAFGK 
VCNSISDLS IHVRTLAAK LLGTMKQVS AKFLNQTLD 
KKLMSNMRR KRTAHELAW ENVTSGEWA SGKKWADDA 
PREILDADS INLMSSGAC GAFVHGLED EFMEVRSAA 
VESLCELSI RNPQFANLS LDFLVDMFN DEIEDVRLK 
AIDSLRRIS EHIILRDDQ LETILGALE DFSQDVREG 
LHHMLASCK MSTTAGLKM CVEKLLDNL KKYPQDKRS 
TYRCLQRVG AQHPELVLP LVPQLLNIH PFFDTAEPD 
VENPQYICV LILILNAAK FSPTIIPLL EPHTLRHYA 
YISDTMPSL VPVLSLPES SCNTISRPQ TVPESLEFL 
NNVISNLDL AENTLRVQT TLLQTAKEH LNRLSEIDS 
SVAGTAQFT SLYIGAQLI MSQILEKGY WLNPGTLAT 
QQANNLKTN ITNLLEYCL KLQFFFVGL SPVEECAVK 
MFRLRALAL NLVYIVKGS NSSALAPCH HFLTIVEDM 
QRDLQVAGL DPDAFTSAV FKELSVLEE PKPGTVSRI 
LIPILSEAR LGKIPRPNV QIRMSSAEI VEPNGQTDT 
SLKFTAGLV MSVHFDAEL RHLIDPSRV RLKVKYPDQ 
KTQIILPRP AHMKPLFVD GEDAQAGHN VRLLTSVLI 
SHQVWSEAC NVEINVALA IPEADIGKR KANVSATPT 
LIDLCKPVK VSVAPKPIK RTL
    CDS sequence
    • >TC013858 RA
      atggctgca gtgttgaaa aaacgcgct ttggccgaa 
ttcacccaa acaatccag gaaactgtt cctttccaa 
ccgattaaa aaactcaaa cttgtcaag aagccttcc 
acaggcacc gggaactcg tctttggca cttattagt 
tgtcttgaa ggttgcaaa agcagtagc gaagcccta 
cgaactttg cttcgtgtc tctgatact ttcgagctt 
gaggcttca gatattccc gaagcagtt aaaaaactg 
agcgatcat tttaagaat gagccagag tcggccgtt 
agagtaaaa attttgtca cttttgtgc gacattggg 
catctaccc aacgctgat gttgtgtcc attattgac 
gagacgatt ttgttgctt aaaaatgac cattcacat 
aaagttatc gctcagggg atgaatacc gtgcttaaa 
ttagggaag ctggtctct gataatgtc atcgctttg 
catcagaaa ctggtagaa gtggcgaaa agttacttg 
aaagatgtc agtcatgct gtcaagagg aaatgtcta 
gagatcatt ggcgtgcat acgccggtt tgtacgggg 
gcagaggcg gagaaatta atggttttg attagttcg 
tactttaac cacgacgac gccagggtg cgtagtcag 
gctttttcg acgattatc accctacat gagcgcaat 
tttaaaata aatccggac atttatata gatgtttgc 
gatgcctta aaggacgac tacgaaatt gtccgtcaa 
gtcgttctc aagttagtg tgtcttttg ggcaacacg 
tttccggaa aatgaggtt gtacttccg ggaagtgaa 
cacgaaatc cgtctcata gacgacgct ttcggtaaa 
gtttgcaac tcgatttct gatttatca atccatgtt 
cgaaccttg gcggctaaa ctattggga acgatgaaa 
caagtcagt gcgaaattt ctcaaccaa actcttgat 
aaaaaatta atgtctaat atgaggcgc aaaaggacg 
gctcatgag ttggcttgg gaaaatgta acgagtgga 
gaatgggcg agtgggaaa aaatgggcc gatgacgcc 
cccagggaa atcctcgac gctgacagc atcaatttg 
atgagcagt ggggcgtgt ggggccttc gtgcacggc 
ttggaggac gagtttatg gaggtgcgt tccgccgcc 
gtcgaatca ctctgcgag ctctccatt cgcaacccc 
caattcgca aatttatcc ctcgacttc ctggtcgat 
atgttcaac gacgaaatc gaggatgtg agactcaaa 
gccattgat agtttacgc cgaatatcc gaacacatt 
attctaaga gacgaccag ttggagacc atcttaggg 
gcccttgag gacttttcg caggatgtc cgagagggc 
ctccaccac atgttggca tcgtgtaaa atgtcaaca 
acagccggg ctcaaaatg tgcgttgaa aaactatta 
gataatctc aaaaaatat ccgcaagat aagcgatcg 
acctatcgg tgtttacaa cgggtgggg gcacagcac 
cccgaattg gtgctccct ctagtgcca caattgtta 
aacatacac ccgtttttc gatactgct gaaccggac 
gtggaaaat ccgcaatat atttgcgtc ctgattttg 
attttaaat gcggcaaag ttttcacct actataatc 
ccacttctg gaaccccac accttacgt cattatgcg 
tacataagt gacacaatg ccgtcccta gttccggtt 
ttaagtctc ccggaatcg agttgtaac acaattagc 
agaccacaa acggtcccg gaaagtctg gagtttctt 
aacaatgtt ataagcaac ttagatttg gccgaaaat 
acattacga gttcagacg acactttta caaaccgct 
aaagaacac ttgaaccgt ttgagtgaa attgactcg 
tcggtcgca gggacggct caattcaca tcgctttac 
attggggcc caattaata atgtcccag atattggaa 
aagggttat tggttaaac ccgggtact ttggccacc 
caacaggcc aacaacctc aaaactaac ataacaaac 
cttctggag tattgtctc aagttgcag tttttcttc 
gtagggctt agccctgtg gaggaatgt gccgtgaaa 
atgttccgc ctgcgggcc ctagccctt aatttagtc 
tacatagtt aaagggagc aactcctca gctttagcc 
ccctgccac cacttcctc accatcgtc gaagacatg 
cagagggac ctacaagtt gcaggtcta gaccctgac 
gcgttcacg tcagccgtt ttcaaagaa ctatcagtc 
ttggaggaa cccaaaccg ggaacagtg tcccgaatt 
ttaatcccg atcctctcg gaagcccga ttgggtaaa 
atcccgcgt cccaacgtc caaattcgg atgagttcg 
gccgagatc gtggaaccc aacggccag actgacacc 
tcgttgaaa ttcaccgcg gggttggtg atgtcggtg 
cattttgat gccgagtta agacacttg attgaccct 
tcaagggtc aggttgaaa gtgaaatat ccggatcag 
aaaacgcaa attattcta ccaaggccg gctcacatg 
aaaccgttg tttgttgac ggggaggat gcgcaagcg 
gggcataat gtgaggctg cttacgtcg gtgctgatt 
tcgcaccaa gtgtggtca gaggcgtgc aacgtggaa 
attaatgtg gccttggcc attccggaa gcggatatc 
gggaaacgg aaggccaat gtgagcgcc acgccgacc 
ttgattgac ctatgcaag ccggtgaag gtcagcgtc 
gcacccaaa ccgatcaaa aggacccta taa
    mRNA sequence
    • >TC013858 RA
      aacaaaccg tcattcggt ccaacaaca aaatagcat 
taattacct aattggaca aaacaataa tttagaatt 
aatgccaga aaccgacaa atgcggtaa attaatacc 
tttaccgct cataaataa aaaaaatca aaaaaccaa 
attttatgt aattgtcac caggtggcg gttgcgtaa 
ctttttgac atttgacaa caatcacaa aataaaatg 
tttaaaaaa cgctaaaat cggttaatt accacataa 
acacgatgg ctgcagtgt tgaaaaaac gcgctttgg 
ccgaattca cccaaacaa tccaggaaa ctgttcctt 
tccaaccga ttaaaaaac tcaaacttg tcaagaagc 
cttccacag gcaccggga actcgtctt tggcactta 
ttagttgtc ttgaaggtt gcaaaagca gtagcgaag 
ccctacgaa ctttgcttc gtgtctctg atactttcg 
agcttgagg cttcagata ttcccgaag cagttaaaa 
aactgagcg atcatttta agaatgagc cagagtcgg 
ccgttagag taaaaattt tgtcacttt tgtgcgaca 
ttgggcatc tacccaacg ctgatgttg tgtccatta 
ttgacgaga cgattttgt tgcttaaaa atgaccatt 
cacataaag ttatcgctc aggggatga ataccgtgc 
ttaaattag ggaagctgg tctctgata atgtcatcg 
ctttgcatc agaaactgg tagaagtgg cgaaaagtt 
acttgaaag atgtcagtc atgctgtca agaggaaat 
gtctagaga tcattggcg tgcatacgc cggtttgta 
cgggggcag aggcggaga aattaatgg ttttgatta 
gttcgtact ttaaccacg acgacgcca gggtgcgta 
gtcaggctt tttcgacga ttatcaccc tacatgagc 
gcaatttta aaataaatc cggacattt atatagatg 
tttgcgatg ccttaaagg acgactacg aaattgtcc 
gtcaagtcg ttctcaagt tagtgtgtc ttttgggca 
acacgtttc cggaaaatg aggttgtac ttccgggaa 
gtgaacacg aaatccgtc tcatagacg acgctttcg 
gtaaagttt gcaactcga tttctgatt tatcaatcc 
atgttcgaa ccttggcgg ctaaactat tgggaacga 
tgaaacaag tcagtgcga aatttctca accaaactc 
ttgataaaa aattaatgt ctaatatga ggcgcaaaa 
ggacggctc atgagttgg cttgggaaa atgtaacga 
gtggagaat gggcgagtg ggaaaaaat gggccgatg 
acgccccca gggaaatcc tcgacgctg acagcatca 
atttgatga gcagtgggg cgtgtgggg ccttcgtgc 
acggcttgg aggacgagt ttatggagg tgcgttccg 
ccgccgtcg aatcactct gcgagctct ccattcgca 
acccccaat tcgcaaatt tatccctcg acttcctgg 
tcgatatgt tcaacgacg aaatcgagg atgtgagac 
tcaaagcca ttgatagtt tacgccgaa tatccgaac 
acattattc taagagacg accagttgg agaccatct 
taggggccc ttgaggact tttcgcagg atgtccgag 
agggcctcc accacatgt tggcatcgt gtaaaatgt 
caacaacag ccgggctca aaatgtgcg ttgaaaaac 
tattagata atctcaaaa aatatccgc aagataagc 
gatcgacct atcggtgtt tacaacggg tgggggcac 
agcaccccg aattggtgc tccctctag tgccacaat 
tgttaaaca tacacccgt ttttcgata ctgctgaac 
cggacgtgg aaaatccgc aatatattt gcgtcctga 
ttttgattt taaatgcgg caaagtttt cacctacta 
taatcccac ttctggaac cccacacct tacgtcatt 
atgcgtaca taagtgaca caatgccgt ccctagttc 
cggttttaa gtctcccgg aatcgagtt gtaacacaa 
ttagcagac cacaaacgg tcccggaaa gtctggagt 
ttcttaaca atgttataa gcaacttag atttggccg 
aaaatacat tacgagttc agacgacac ttttacaaa 
ccgctaaag aacacttga accgtttga gtgaaattg 
actcgtcgg tcgcaggga cggctcaat tcacatcgc 
tttacattg gggcccaat taataatgt cccagatat 
tggaaaagg gttattggt taaacccgg gtactttgg 
ccacccaac aggccaaca acctcaaaa ctaacataa 
caaaccttc tggagtatt gtctcaagt tgcagtttt 
tcttcgtag ggcttagcc ctgtggagg aatgtgccg 
tgaaaatgt tccgcctgc gggccctag cccttaatt 
tagtctaca tagttaaag ggagcaact cctcagctt 
tagccccct gccaccact tcctcacca tcgtcgaag 
acatgcaga gggacctac aagttgcag gtctagacc 
ctgacgcgt tcacgtcag ccgttttca aagaactat 
cagtcttgg aggaaccca aaccgggaa cagtgtccc 
gaattttaa tcccgatcc tctcggaag cccgattgg 
gtaaaatcc cgcgtccca acgtccaaa ttcggatga 
gttcggccg agatcgtgg aacccaacg gccagactg 
acacctcgt tgaaattca ccgcggggt tggtgatgt 
cggtgcatt ttgatgccg agttaagac acttgattg 
acccttcaa gggtcaggt tgaaagtga aatatccgg 
atcagaaaa cgcaaatta ttctaccaa ggccggctc 
acatgaaac cgttgtttg ttgacgggg aggatgcgc 
aagcggggc ataatgtga ggctgctta cgtcggtgc 
tgatttcgc accaagtgt ggtcagagg cgtgcaacg 
tggaaatta atgtggcct tggccattc cggaagcgg 
atatcggga aacggaagg ccaatgtga gcgccacgc 
cgaccttga ttgacctat gcaagccgg tgaaggtca 
gcgtcgcac ccaaaccga tcaaaagga ccctataat 
ttttgtaaa tattttttg taataataa ataataata 
atttac

    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