Status
Please wait ...
Gene information
General information
TC002972 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_007418.3: 5523951..5526328
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
    		TC002972
    Gene ontology

    GO terms for Tribolium

    • {{ goTerm.term }}
      ({{ goTerm.evidence }}){{ goTerm.evidenceTooltip }}
      {{goTerm.showAll ? '[-]' : '[+]'}}
      Status: {{ goTerm.status }}
      Evidence: {{ goTerm.evidence }} ({{ goTerm.evidenceTooltip }})
      Reference: {{ goTerm.referenceText }}
      Quotation: {{ goTerm.quotation }}
      Submitter: {{ goTerm.name }}

    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.
      {{ unavailableText }}

    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_00486

    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: 60.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 2 (9 dpi)
    Days post injection

    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    Phenotype after larval injection
    TR: 47118 potentially confused/crosscontaminated with : iB # (comma separated) 00502
    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: 50.0% (includes death as larva, prepupa, pupa, adult)

    adult lethality immediately after eclosion - Number of animals showing the phenotype: 4 (19 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC002972 RA
      MSTLKTVWN CMFGPRLIK IYGNEGPVE KFYQPHSFE 
KWGDQVIHS LYVIWKIGV YTSPFLVGI LYQRGYLTV 
EGLGPFTKL VTSISVILI VSYCCKGLG RFSNPTYLN 
FLSTLEAAR KELTPETKH QLSLYDFEF HSWPVEFDM 
RTVRKDTTK TFINKPILH QNVLQYLTQ IPFRIIAYV 
AIHTFGIRL IYPGSIGII QMILEQSLL QGRSRLIEH 
NQGERFKVR TCDNNDIDT MFIDRRKST QNGNTLVIC 
SEGNAGFYE IGIMITAIE AGYSTLGWN HPGFGGSTG 
KPFPTQEQN AVDAVLQFA IYKLGFKPE NIILFGWSI 
GGYSTSWAA MNYPDVRGV IVDATFDDI LPLAINHMP 
SWWESIVKL AIREYVNLN VFEQLAKYP GPVLIIRRT 
EDEVICLRE NELSSNRGN DLLIKLLRV RYPYIFEDR 
QIDVLKQYL SVAFASQDL FLKKYNVNE NVCNSLLQT 
YISEYSKSF PMKIGEEFQ DQDKNQMAL FLARKYMKD 
FKATHCTNL PAEMFQPPW DVNVESDFV FT
    CDS sequence
    • >TC002972 RA
      atgtcaaca ctaaaaaca gtttggaat tgcatgttt 
gggccaaga ttaatcaaa atatacgga aacgagggc 
cctgtcgag aagttctat caacctcac agtttcgaa 
aaatggggc gatcaagtg atacattct ttgtacgtt 
atttggaaa atcggagtg tacacgtcc ccgttctta 
gtagggata ctataccag cgaggctat ttgactgtt 
gagggtttg gggccattc acaaaatta gttactagt 
ataagtgtt attctgata gtttcttac tgttgcaaa 
ggtttgggt aggttcagt aacccaact tacttgaac 
tttttgtca acactggaa gcagctagg aaggaattg 
acccctgaa acaaaacac cagctctct ttgtatgat 
tttgaattt cacagctgg cctgtagag tttgatatg 
cgtactgtg agaaaggac accacaaag acattcatt 
aataaacca attcttcac caaaacgta ttacaatat 
ctcacgcaa atacctttc cgaattatc gcttatgtc 
gcaattcac actttcggt attagatta atataccca 
ggctccatt gggatcatt caaatgata ctggagcag 
agccttctt caaggcagg tctaggctg attgaacac 
aaccaagga gaacgattc aaagtgcgc acttgtgac 
aacaacgac attgatact atgttcata gacagacgc 
aagagtacc caaaatggc aatactttg gtcatttgt 
tccgaaggc aatgcaggc ttttacgaa attggcatt 
atgataaca gctatagaa gcaggctac tcaacgctt 
ggatggaac catccaggc tttggcggt agtactggc 
aagccattc ccaacacaa gaacaaaat gcagttgac 
gctgtacta caattcgcc atttataaa ctaggtttt 
aagcctgaa aatatcata ctgtttggg tggagcatt 
gggggctac tcaacgtcg tgggcggcc atgaattat 
cctgatgtg agaggagtg attgttgat gctactttc 
gatgatatt cttccactg gccataaat cacatgcca 
tcttggtgg gaatccatc gtcaagcta gctattaga 
gaatacgta aacttgaac gtctttgaa cagcttgcg 
aaatatcca ggccctgtt cttatcatt aggcgaacg 
gaagatgaa gttatctgt ctaagagaa aacgaattg 
tcttcaaat cgcggaaac gacttatta atcaaattg 
ttacgtgtg agatatccc tacattttt gaagacagg 
caaatcgat gtattgaaa caatatcta tctgtcgcc 
ttcgcttct caagacttg tttttgaaa aaatataac 
gtgaacgaa aatgtatgc aattcactt ttgcaaact 
tacatttcc gagtattcg aaatctttc cccatgaaa 
attggggag gagttccag gatcaagac aagaaccag 
atggcgctc tttttggca aggaaatac atgaaagat 
ttcaaagcc acacattgc actaatcta ccggctgag 
atgtttcaa ccaccttgg gacgtcaac gttgagtct 
gattttgtt ttcacttaa
    mRNA sequence
    • >TC002972 RA
      ccgcccctg tttctgctg tcaattgta aattgtgac 
gtcagacgt tacatttac aaacaattt tttaaaggt 
gtaaaatga aatgtaaat acttttgat atagtggaa 
tccgtcgtt aaacgtaca ttaagtgtt agaacttgc 
catattcat tattaaata gaaaattag caccttctt 
gcaactttc accacgaaa cctaaccat aaaattatc 
gcaaaatgt caacactaa aaacagttt ggaattgca 
tgtttgggc caagattaa tcaaaatat acggaaacg 
agggccctg tcgagaagt tctatcaac ctcacagtt 
tcgaaaaat ggggcgatc aagtgatac attctttgt 
acgttattt ggaaaatcg gagtgtaca cgtccccgt 
tcttagtag ggatactat accagcgag gctatttga 
ctgttgagg gtttggggc cattcacaa aattagtta 
ctagtataa gtgttattc tgatagttt cttactgtt 
gcaaaggtt tgggtaggt tcagtaacc caacttact 
tgaactttt tgtcaacac tggaagcag ctaggaagg 
aattgaccc ctgaaacaa aacaccagc tctctttgt 
atgattttg aatttcaca gctggcctg tagagtttg 
atatgcgta ctgtgagaa aggacacca caaagacat 
tcattaata aaccaattc ttcaccaaa acgtattac 
aatatctca cgcaaatac ctttccgaa ttatcgctt 
atgtcgcaa ttcacactt tcggtatta gattaatat 
acccaggct ccattggga tcattcaaa tgatactgg 
agcagagcc ttcttcaag gcaggtcta ggctgattg 
aacacaacc aaggagaac gattcaaag tgcgcactt 
gtgacaaca acgacattg atactatgt tcatagaca 
gacgcaaga gtacccaaa atggcaata ctttggtca 
tttgttccg aaggcaatg caggctttt acgaaattg 
gcattatga taacagcta tagaagcag gctactcaa 
cgcttggat ggaaccatc caggctttg gcggtagta 
ctggcaagc cattcccaa cacaagaac aaaatgcag 
ttgacgctg tactacaat tcgccattt ataaactag 
gttttaagc ctgaaaata tcatactgt ttgggtgga 
gcattgggg gctactcaa cgtcgtggg cggccatga 
attatcctg atgtgagag gagtgattg ttgatgcta 
ctttcgatg atattcttc cactggcca taaatcaca 
tgccatctt ggtgggaat ccatcgtca agctagcta 
ttagagaat acgtaaact tgaacgtct ttgaacagc 
ttgcgaaat atccaggcc ctgttctta tcattaggc 
gaacggaag atgaagtta tctgtctaa gagaaaacg 
aattgtctt caaatcgcg gaaacgact tattaatca 
aattgttac gtgtgagat atccctaca tttttgaag 
acaggcaaa tcgatgtat tgaaacaat atctatctg 
tcgccttcg cttctcaag acttgtttt tgaaaaaat 
ataacgtga acgaaaatg tatgcaatt cacttttgc 
aaacttaca tttccgagt attcgaaat ctttcccca 
tgaaaattg gggaggagt tccaggatc aagacaaga 
accagatgg cgctctttt tggcaagga aatacatga 
aagatttca aagccacac attgcacta atctaccgg 
ctgagatgt ttcaaccac cttgggacg tcaacgttg 
agtctgatt ttgttttca cttaaaatg tgaaggaat 
tggtgataa gaggtttta aaatgtcct tggtatttg 
taagatttt atgaaaata ttttggtgt aatatgaaa 
taaatatgt aaaaatgtg acggttcta gttaagttt 
tgttagtaa

    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