Status
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Gene information
General information
TC008118 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_007419.2: 5267185..5275364
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
    		TC008118
    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
    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_01310

    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: 20.0% (includes death as pupa, adult)

    adult lethality - Number of animals showing the phenotype: 2 (9 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: % (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
    • >TC008118 RA
      MHTRGLIFW LILSFYRSA AEDAATEKL KSRDNFKST 
YSANDLLLS DSSINTCSI DDFACLTMA ANDRLGLEA 
IKTLHQKLD DDANGNVDL SESDDFLRE ELQYDSGYE 
RRQKAFHRN DDMHISVKE LWEAWLKSE VHNWTVEQT 
TDWLVSSVD LPQYVPSFI SHKVTGANL PRLAANNVN 
YLNHLGIKD PIHKQKIVL KAMDVVLFG PPKDGQPHW 
KDLTLIVLL IGGGIGVWY AFQQNKKFK NHLNRMNRD 
MDSLQNAEK ALENLQKEL EEAKQAQED VITEKQNLE 
KKLQDSKTD LDSLPYSDL EVNQLKAEI EMLRTELQI 
AEGELKDRC WSPPPGLQQ WLQLTHEIE NKAYMKKKA 
SAEKQLQQA REACEKLRK KRSSLVGAF VSTHGKSID 
EVDRSIVEA RTALNEVTQ ELQERVHRW KQIEMLCGF 
SIINNNGLQ FLENTLYRN TNGRALPVR GRISSQDDL 
DDDTASLYG HQGHSEGTA LHSWKEGDS SGSETSRQE 
EDSHSESKP TPGVHFMVG GEISTWPED SSSYTKISK 
LSSNPRSIS NNNIPLTNK SSQMTRSFS QDTNVGTLD 
SVKPKSSLS DTSLDAPLK PKPLRQTTI KEQPSASIE 
EDICSTDSS LMDEDIKKK KKKLFAFTK KSKGKND
    CDS sequence
    • >TC008118 RA
      atgcatacc cggggacta attttttgg ttaatcttg 
agcttttac cgaagtgct gccgaagat gccgccacg 
gaaaaactc aagtcgcgg gacaacttc aagagtact 
tactcggcc aacgactta ctcctcagc gacagctcc 
atcaacacc tgcagcatc gacgacttc gcctgcctc 
acgatggcc gccaacgac cgcctgggg ctggaagcc 
atcaagacc ctgcaccag aagctggac gacgacgcc 
aacggcaac gtggacctc tcggaatcc gatgacttc 
ctcagagag gaattgcaa tacgactct ggctacgag 
cgccgacag aaggccttc catcgcaac gacgacatg 
cacatctcc gtcaaggaa ctgtgggag gcctggttg 
aagtcagaa gtgcacaac tggacggtt gaacaaacc 
accgattgg ctcgtctct tcggttgat ttgccccaa 
tatgttcct agttttatc tcgcacaaa gtcaccggg 
gctaactta cccagattg gctgccaat aacgttaac 
tatcttaac catctcgga atcaaggac ccgatacat 
aagcaaaaa atcgtcctc aaggccatg gacgtggtg 
ctttttggc cccccaaag gacggccag ccgcattgg 
aaggacctc accttgatc gtccttctc atcggtggt 
ggaatcggt gtttggtat gcgttccaa caaaacaaa 
aaattcaaa aaccacctg aatcgcatg aaccgtgac 
atggacagt ttacagaac gcggaaaag gcgttagaa 
aacttacaa aaagaactc gaagaagcc aaacaagcg 
caagaagac gtaatcacc gaaaaacag aatttagaa 
aagaaattg caagattcg aaaacggat ctcgactca 
ttgccgtat tccgatttg gaggtgaac caactcaag 
gccgaaatc gagatgctg aggactgaa ctgcagatc 
gctgagggg gagctgaag gacaggtgc tggtcgccg 
ccgccgggc ctccaacag tggctgcag ctcacccac 
gaaatagaa aataaagcc tacatgaag aaaaaagcg 
tcggcggaa aaacaacta caacaagcg agagaagct 
tgtgagaaa ttgaggaag aagcggtcg agtctcgtc 
ggtgctttt gtctcaact cacggcaaa tccatcgat 
gaagttgat aggagcata gttgaggcg cggacggcc 
ctgaatgag gtcacccaa gaattgcaa gagcgtgtc 
catagatgg aagcagatt gagatgttg tgtggcttc 
agcatcatc aacaataac ggtttgcag tttttggaa 
aacaccctg tatcgtaat actaacgga cgggcgctg 
ccagtacga ggtcgcatc agcagtcag gatgatctg 
gacgacgat acagcttcg ctctacggc caccaaggc 
cattcagag gggaccgcg ctgcattcg tggaaagaa 
ggtgactct tcagggagc gaaactagc cgacaggag 
gaagactcc cattcggag agcaagccg acgcctgga 
gtccacttc atggtggga ggagagatc tcaacttgg 
cccgaagat tcaagtagt tacactaaa attagcaaa 
ttgtcttcc aatccgcga agtattagc aacaataat 
atcccgttg acgaacaaa tcgtcgcaa atgacccgc 
tctttttcg caagatacg aacgtaggg actttggac 
tcggtcaag ccgaagtcc tcgctgtcc gatacctcg 
ttggacgcg cctcttaag cccaaaccg ctgcggcag 
acgacaata aaagagcag ccgtcggcg tcaatcgag 
gaggatatc tgttcgacg gactcctct ctaatggac 
gaagatatc aagaagaag aagaaaaag ctgttcgcg 
ttcacgaaa aagagcaag ggtaaaaat gactga
    mRNA sequence
    • >TC008118 RA
      gttccgaaa taaataaaa cgataacag tgaatagca 
gaaacaagg tttaaaaat caacacttg gaaatgtac 
tccaatttc ctctgaagg ttaaaaacg atgcatacc 
cggggacta attttttgg ttaatcttg agcttttac 
cgaagtgct gccgaagat gccgccacg gaaaaactc 
aagtcgcgg gacaacttc aagagtact tactcggcc 
aacgactta ctcctcagc gacagctcc atcaacacc 
tgcagcatc gacgacttc gcctgcctc acgatggcc 
gccaacgac cgcctgggg ctggaagcc atcaagacc 
ctgcaccag aagctggac gacgacgcc aacggcaac 
gtggacctc tcggaatcc gatgacttc ctcagagag 
gaattgcaa tacgactct ggctacgag cgccgacag 
aaggccttc catcgcaac gacgacatg cacatctcc 
gtcaaggaa ctgtgggag gcctggttg aagtcagaa 
gtgcacaac tggacggtt gaacaaacc accgattgg 
ctcgtctct tcggttgat ttgccccaa tatgttcct 
agttttatc tcgcacaaa gtcaccggg gctaactta 
cccagattg gctgccaat aacgttaac tatcttaac 
catctcgga atcaaggac ccgatacat aagcaaaaa 
atcgtcctc aaggccatg gacgtggtg ctttttggc 
cccccaaag gacggccag ccgcattgg aaggacctc 
accttgatc gtccttctc atcggtggt ggaatcggt 
gtttggtat gcgttccaa caaaacaaa aaattcaaa 
aaccacctg aatcgcatg aaccgtgac atggacagt 
ttacagaac gcggaaaag gcgttagaa aacttacaa 
aaagaactc gaagaagcc aaacaagcg caagaagac 
gtaatcacc gaaaaacag aatttagaa aagaaattg 
caagattcg aaaacggat ctcgactca ttgccgtat 
tccgatttg gaggtgaac caactcaag gccgaaatc 
gagatgctg aggactgaa ctgcagatc gctgagggg 
gagctgaag gacaggtgc tggtcgccg ccgccgggc 
ctccaacag tggctgcag ctcacccac gaaatagaa 
aataaagcc tacatgaag aaaaaagcg tcggcggaa 
aaacaacta caacaagcg agagaagct tgtgagaaa 
ttgaggaag aagcggtcg agtctcgtc ggtgctttt 
gtctcaact cacggcaaa tccatcgat gaagttgat 
aggagcata gttgaggcg cggacggcc ctgaatgag 
gtcacccaa gaattgcaa gagcgtgtc catagatgg 
aagcagatt gagatgttg tgtggcttc agcatcatc 
aacaataac ggtttgcag tttttggaa aacaccctg 
tatcgtaat actaacgga cgggcgctg ccagtacga 
ggtcgcatc agcagtcag gatgatctg gacgacgat 
acagcttcg ctctacggc caccaaggc cattcagag 
gggaccgcg ctgcattcg tggaaagaa ggtgactct 
tcagggagc gaaactagc cgacaggag gaagactcc 
cattcggag agcaagccg acgcctgga gtccacttc 
atggtggga ggagagatc tcaacttgg cccgaagat 
tcaagtagt tacactaaa attagcaaa ttgtcttcc 
aatccgcga agtattagc aacaataat atcccgttg 
acgaacaaa tcgtcgcaa atgacccgc tctttttcg 
caagatacg aacgtaggg actttggac tcggtcaag 
ccgaagtcc tcgctgtcc gatacctcg ttggacgcg 
cctcttaag cccaaaccg ctgcggcag acgacaata 
aaagagcag ccgtcggcg tcaatcgag gaggatatc 
tgttcgacg gactcctct ctaatggac gaagatatc 
aagaagaag aagaaaaag ctgttcgcg ttcacgaaa 
aagagcaag ggtaaaaat gactgaggg tgagtcggc 
gtttaggat gacttgtct tgttatccc ggggatcgt 
taaacaggg ataatgtac ctcgattat gtttcttta 
attttgtag ctactaata ggtaatttt cgatatgtc 
attttaggt ttgctagtt taatgcttc gacgtattg 
aaaattcaa tttttccca aggaaagtt aactgaaaa 
tgtgcagat attagtctt ccacttaac ccgagttaa 
ttattttgt atattttgg acgaatcct aggaatgtt 
tttgttcct taatttcca gttttattt attccattg 
tacttagaa atcgtgact gaactgtcc taaagcgcc 
taagtgtac ttcaattat tgtgatgat aattgtatc 
tcttttatt ttccttctt aaccgatca ttgggcttt 
gcagcaaag ttaattgtg ataaattag tagacgaga 
attttattt tcgtgaatt ttatttaga ttaaaaata 
aagacaggg gttttactc gtttagttt atttcacag 
cttccttaa ttaatgatt ggaggtttc cttcttcat 
tgacgaggg gagcggtag tttatttta taatattca 
tttgcaata attgagtaa ttgtaac

    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