Status
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Gene information
General information
TC000170 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: 15102943..15104989
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
    		TC000170
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00033

    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: 0.0% (includes death as pupa, adult)

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 50
    Phenotype after larval injection
    TR: 11557 potentially confused/crosscontaminated with : iB # (comma separated) 9
    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: 0.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 0.0% (includes death as larva, prepupa, pupa, adult)

    remarks: later than schedule, hours 24 adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    Pupal morphology
    remarks: later than schedule, hours 24
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC000170 RA
      MAVSNTTLP SLYEYYTSG GITSGLSAN QSYFTLNNR 
NVTLYSGAM HYFRVPRQY WRDRLRKMR AAGLNTVET 
YIPWNLHEP FNNFYDFGN GGSDMEEFL DVRQFLTIA 
QEEDLFAII RPGPYICSE WEFGGFPSW LLRYHDIKL 
RTSDPTYMK FVTRYFNLL LSLLAIFQF TRGGPIIAF 
QVENEYGST EQPGKFTPD KVYLKQLRQ IMLNNGIVE 
LLVTSDSPT LHGTAGTLP EYFLQTANF ASDPETEFD 
KLKQLQKNR PTMAMEFWT GWFDHWSEK HHTRDNSDF 
YDVFDRILK YPASVNMYM FHGGTNWGF YNGANLNND 
AMDNSGYQP DTTSYDYDA PLSENGDYT EKYHIVKQL 
IGKYSQVKT RVPQPPAGT PSHKYPTVP IIGQLLLDE 
LIKLVPVTF QNRVPLPME LLPLNNYSG QSYGYVVYR 
KVNVTIPAN ATLRITGHV CDTVTVLVD GFLLNKPLK 
KSRDLDHFG YWRLKNSTI TLSTQNLTG ATLDLMVEN 
WGRNNFGHL EQFNQFKGL WQGGVFLND EELLNWQII 
PLEFRKKWS MGLNGWHGT YQRWAPGPA LYRAILTVE 
VPQDTFIDM EKWVKGIVI VNGFVLGRF ARIGPQQTL 
YLPGPFLKK GNNTILVFD HFARGHEVS FSQTAKYKT 
RGKFNFW
    CDS sequence
    • >TC000170 RA
      atggctgtg tctaacaca actttgcct tctctctac 
gaatattac actagtggt ggcattaca agcggcctt 
tcagccaat caatcgtac tttacgtta aacaatcga 
aatgtgaca ctttacagt ggtgctatg cattatttc 
cgggtacca cggcagtac tggagagat cgtttgcgt 
aaaatgcga gctgctggc ctaaacact gttgaaacc 
tacattccc tggaatttg cacgaaccg tttaacaat 
ttctacgac tttggaaac ggtggtagt gacatggag 
gagttcctg gacgtccgc cagttcctg acaattgca 
caggaagaa gatttgttt gcaatcatc cggccagga 
ccttacatt tgttccgaa tgggaattt ggagggttc 
cctagttgg ttgttgcgt taccacgat attaaatta 
cgtacttca gacccaact tatatgaaa ttcgtgaca 
cggtacttt aacctactc ctttcatta cttgccatt 
tttcaattc acacgtgga gggccgatt atagcgttt 
caagtcgaa aatgagtat ggcagtacc gaacaacct 
ggcaaattc acacctgac aaggtttac ctcaaacag 
ttacgccaa attatgcta aataacgga atagtcgag 
ttgttggta acgtcagat agcccaaca cttcatggt 
actgctggt accttacct gagtacttc ctccaaacg 
gcaaacttc gcctctgat cccgaaacc gaatttgac 
aaacttaaa caattgcaa aagaatcga ccaaccatg 
gctatggaa ttctggact gggtggttc gaccattgg 
tccgaaaaa caccacaca agggataat agcgatttt 
tacgacgtt tttgaccga attttgaag tacccagct 
tcggtcaac atgtacatg tttcatggt ggtactaac 
tgggggttt tacaacggt gccaactta aataacgac 
gctatggac aactctggg taccaacca gacaccaca 
agttacgat tatgacgcc ccattgtcc gaaaatggt 
gattatacc gaaaagtac cacattgtt aaacaatta 
attgggaag tacagtcaa gtcaagaca cgggtacca 
caaccacca gctggcaca cctagtcat aagtaccca 
acggtacca attattggg caattgcta ttggatgaa 
ttgatcaaa ttggtacca gtgacgttc caaaatcgg 
gtaccacta ccaatggag ttgctcccg ttaaataat 
tactcgggg cagagttac ggttatgtg gtttatcgt 
aaagtgaat gtgacaata ccggcaaat gccactcta 
cgtatcaca ggccacgtg tgcgacacg gtcacagtc 
ctagttgat gggttccta ctgaacaaa ccattgaaa 
aaatcgcgt gatttggac cactttggt tattggcgt 
ctcaaaaac tccacaatt acgctcagt acccaaaac 
ttgaccggt gccactttg gacctgatg gtggaaaat 
tggggccga aacaatttc ggacatttg gaacagttt 
aaccagttc aagggttta tggcaaggt ggtgtgttt 
ttaaacgat gaagaattg ctcaattgg caaattata 
ccattggag tttcgcaag aaatggtca atgggtttg 
aatggttgg catgggacg taccaacga tgggcacct 
ggtccggcc ctttaccgt gcgatttta accgttgaa 
gtaccgcaa gacacgttt attgacatg gaaaagtgg 
gttaagggc attgttata gtcaatggg tttgtttta 
gggcggttt gcaaggatc gggccgcaa caaacgttg 
taccttcct gggcccttt ttaaaaaaa gggaacaac 
acgattttg gtgtttgat cattttgca cgaggtcat 
gaagtgagt ttttcacaa acagccaag tataaaaca 
aggggcaaa tttaatttt tggtaa
    mRNA sequence
    • >TC000170 RA
      aaactccag ttgataagc caacacaaa cactgaaaa 
ttggaacag tttaattga ataatggct gtgtctaac 
acaactttg ccttctctc tacgaatat tacactagt 
ggtggcatt acaagcggc ctttcagcc aatcaatcg 
tactttacg ttaaacaat cgaaatgtg acactttac 
agtggtgct atgcattat ttccgggta ccacggcag 
tactggaga gatcgtttg cgtaaaatg cgagctgct 
ggcctaaac actgttgaa acctacatt ccctggaat 
ttgcacgaa ccgtttaac aatttctac gactttgga 
aacggtggt agtgacatg gaggagttc ctggacgtc 
cgccagttc ctgacaatt gcacaggaa gaagatttg 
tttgcaatc atccggcca ggaccttac atttgttcc 
gaatgggaa tttggaggg ttccctagt tggttgttg 
cgttaccac gatattaaa ttacgtact tcagaccca 
acttatatg aaattcgtg acacggtac tttaaccta 
ctcctttca ttacttgcc atttttcaa ttcacacgt 
ggagggccg attatagcg tttcaagtc gaaaatgag 
tatggcagt accgaacaa cctggcaaa ttcacacct 
gacaaggtt tacctcaaa cagttacgc caaattatg 
ctaaataac ggaatagtc gagttgttg gtaacgtca 
gatagccca acacttcat ggtactgct ggtacctta 
cctgagtac ttcctccaa acggcaaac ttcgcctct 
gatcccgaa accgaattt gacaaactt aaacaattg 
caaaagaat cgaccaacc atggctatg gaattctgg 
actgggtgg ttcgaccat tggtccgaa aaacaccac 
acaagggat aatagcgat ttttacgac gtttttgac 
cgaattttg aagtaccca gcttcggtc aacatgtac 
atgtttcat ggtggtact aactggggg ttttacaac 
ggtgccaac ttaaataac gacgctatg gacaactct 
gggtaccaa ccagacacc acaagttac gattatgac 
gccccattg tccgaaaat ggtgattat accgaaaag 
taccacatt gttaaacaa ttaattggg aagtacagt 
caagtcaag acacgggta ccacaacca ccagctggc 
acacctagt cataagtac ccaacggta ccaattatt 
gggcaattg ctattggat gaattgatc aaattggta 
ccagtgacg ttccaaaat cgggtacca ctaccaatg 
gagttgctc ccgttaaat aattactcg gggcagagt 
tacggttat gtggtttat cgtaaagtg aatgtgaca 
ataccggca aatgccact ctacgtatc acaggccac 
gtgtgcgac acggtcaca gtcctagtt gatgggttc 
ctactgaac aaaccattg aaaaaatcg cgtgatttg 
gaccacttt ggttattgg cgtctcaaa aactccaca 
attacgctc agtacccaa aacttgacc ggtgccact 
ttggacctg atggtggaa aattggggc cgaaacaat 
ttcggacat ttggaacag tttaaccag ttcaagggt 
ttatggcaa ggtggtgtg tttttaaac gatgaagaa 
ttgctcaat tggcaaatt ataccattg gagtttcgc 
aagaaatgg tcaatgggt ttgaatggt tggcatggg 
acgtaccaa cgatgggca cctggtccg gccctttac 
cgtgcgatt ttaaccgtt gaagtaccg caagacacg 
tttattgac atggaaaag tgggttaag ggcattgtt 
atagtcaat gggtttgtt ttagggcgg tttgcaagg 
atcgggccg caacaaacg ttgtacctt cctgggccc 
tttttaaaa aaagggaac aacacgatt ttggtgttt 
gatcatttt gcacgaggt catgaagtg agtttttca 
caaacagcc aagtataaa acaaggggc aaatttaat 
ttttggtaa tcaataaac aaaaaaacc gttt

    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