Status
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Gene information
General information
TC012996 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: 15419138..15421176
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
    		TC012996
    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_05367

    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: 30.0% (includes death as pupa, adult)

    pupa eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 1 (3 dpi)
    Days post injection

    beetle stock: bad (increased lethality),
    Pupal morphology
    beetle stock: bad (increased lethality),
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 20
    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: 40.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 60.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality early (L5/6) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (19 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 2 (19 dpi)
    Days post injection

    Fertility
    ovary without detectable defects - Number of animals showing the phenotype: 3
    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC012996 RA
      MEEEISQKI CRACLTESG EFQSIFVPD EKTGTSIHI 
SEMMMAFAT VQVTLGDGL PEQICSTCA RTTVDMYMF 
KLKCEESEK ILRSRLAKS PFQEQFTIE EKHYVETKG 
DVDVYSIVI KPELCSEDS EINHELSSD FEHLNAPDK 
SDSDLDAFE LYADEGGQE HRCPHCPKV FDKESAANR 
HIKTHSAVK AYKCDTCDK RFSRNDLLL RHKIAHAMK 
MDDQKFELE NFSDDDEDP DDDTIIIKT ETALYPCAE 
CNLIFIKKE ELDAHIQKH EKGGGEGIV CNVCMKTFS 
KQAHLNRHK KIHSQNKPH VCPTCNKGF VRAEQLNNH 
MNIHSGIKP HVCAICLKG FNQISNLKD HMRTHNGEK 
PFLCSTCGK GFNQLGNLR QHTIRHSGI KAHLCSTCG 
NGFASKGEL SAHLRKHTG ARPFVCPIC NHGFTTSSS 
LTKHKRIHS GEKPYECDV CKMKFSRSG ILARHKRTH 
TGEKPYVCK FCTKAFSQS NDLTSHLRI HTGEKPYIC 
DVCGQAFRQ SSALKTHKK THPGREVID TKIGVLGVM 
HTPFLT
    CDS sequence
    • >TC012996 RA
      atggaggag gaaatctcc caaaaaatt tgtcgtgcc 
tgtttgacc gagtctggc gaattccag tcgatcttc 
gtccccgat gagaaaacc ggcacttcc atacacatt 
tctgaaatg atgatggca ttcgctacc gtccaggta 
actcttggt gacggtctc ccggaacaa atctgctcc 
acgtgcgcc cgcaccact gtagatatg tacatgttc 
aagttaaag tgcgaagaa tcggagaaa atcctgcga 
agtcggctg gccaaaagc cccttccag gagcagttc 
accatcgag gagaagcac tacgtggag accaagggg 
gacgtggac gtttacagc atagtgatc aagcctgag 
ctgtgctcc gaagactcg gaaatcaac cacgagctc 
agctcagac tttgagcat ttgaacgca ccggataaa 
agtgacagt gatttggac gcgtttgag ttgtacgcg 
gatgaaggg ggccaggag caccggtgt ccccattgc 
cccaaagtg ttcgataag gaaagtgcg gccaatcgc 
cacatcaaa acacattcg gctgttaaa gcttacaag 
tgtgatacg tgtgataag agattttcg cggaatgat 
cttctatta cggcacaaa attgcacat gcgatgaaa 
atggacgac caaaaattc gaattggaa aatttcagc 
gatgatgat gaagatccg gatgatgac acgattatt 
attaaaact gaaacggct ttgtatcca tgtgctgaa 
tgcaatctc atttttatt aagaaagag gaacttgat 
gcacacatt caaaagcat gaaaaaggg ggtggcgaa 
ggaattgtt tgtaatgtt tgtatgaaa acgttcagc 
aaacaagcg catttgaat cgacataag aaaattcat 
tcgcagaat aagccacat gtttgtccg acctgtaat 
aagggattt gtgagggcg gaacagctt aataaccac 
atgaatata cattctgga atcaaaccg catgtctgt 
gcgatttgt ctcaaaggt tttaaccaa atatcaaat 
ttgaaagac cacatgcga acccacaac ggtgaaaag 
ccctttctt tgttccacc tgtggcaag ggcttcaac 
cagttggga aaccttcgt caacacacc atccgccac 
agcggcatt aaagcccac ctttgcagt acgtgtggt 
aacggtttc gccagcaaa ggtgaactt tcagcccat 
ctccgaaaa cacaccggt gcgcgccct ttcgtgtgt 
ccaatctgt aaccacggc tttacaact tcaagttcg 
ttaacaaaa cacaaacga atccattcc ggggaaaaa 
ccgtacgag tgtgacgta tgcaaaatg aagttttcg 
cggtcgggg attctagcc agacataaa aggacgcac 
acgggagag aaaccttac gtttgcaag ttttgtaca 
aaagcattt tcacagtcg aatgatctg acgtcacat 
ttgcggatt cacacgggg gaaaaaccg tacatttgc 
gatgtatgt ggacaggca tttaggcag agttctgcg 
cttaaaact cataagaaa acgcatcct ggacgagag 
gttattgac acgaaaatt ggggtcttg ggggtcatg 
cataccccc tttttaacg taa
    mRNA sequence
    • >TC012996 RA
      cgttcgatt gattgtcaa aagtttggt tgcaatttt 
aacctaata aaaataatg gaggaggaa atctcccaa 
aaaatttgt cgtgcctgt ttgaccgag tctggcgaa 
ttccagtcg atcttcgtc cccgatgag aaaaccggc 
acttccata cacatttct gaaatgatg atggcattc 
gctaccgtc caggtaact cttggtgac ggtctcccg 
gaacaaatc tgctccacg tgcgcccgc accactgta 
gatatgtac atgttcaag ttaaagtgc gaagaatcg 
gagaaaatc ctgcgaagt cggctggcc aaaagcccc 
ttccaggag cagttcacc atcgaggag aagcactac 
gtggagacc aagggggac gtggacgtt tacagcata 
gtgatcaag cctgagctg tgctccgaa gactcggaa 
atcaaccac gagctcagc tcagacttt gagcatttg 
aacgcaccg gataaaagt gacagtgat ttggacgcg 
tttgagttg tacgcggat gaagggggc caggagcac 
cggtgtccc cattgcccc aaagtgttc gataaggaa 
agtgcggcc aatcgccac atcaaaaca cattcggct 
gttaaagct tacaagtgt gatacgtgt gataagaga 
ttttcgcgg aatgatctt ctattacgg cacaaaatt 
gcacatgcg atgaaaatg gacgaccaa aaattcgaa 
ttggaaaat ttcagcgat gatgatgaa gatccggat 
gatgacacg attattatt aaaactgaa acggctttg 
tatccatgt gctgaatgc aatctcatt tttattaag 
aaagaggaa cttgatgca cacattcaa aagcatgaa 
aaagggggt ggcgaagga attgtttgt aatgtttgt 
atgaaaacg ttcagcaaa caagcgcat ttgaatcga 
cataagaaa attcattcg cagaataag ccacatgtt 
tgtccgacc tgtaataag ggatttgtg agggcggaa 
cagcttaat aaccacatg aatatacat tctggaatc 
aaaccgcat gtctgtgcg atttgtctc aaaggtttt 
aaccaaata tcaaatttg aaagaccac atgcgaacc 
cacaacggt gaaaagccc tttctttgt tccacctgt 
ggcaagggc ttcaaccag ttgggaaac cttcgtcaa 
cacaccatc cgccacagc ggcattaaa gcccacctt 
tgcagtacg tgtggtaac ggtttcgcc agcaaaggt 
gaactttca gcccatctc cgaaaacac accggtgcg 
cgccctttc gtgtgtcca atctgtaac cacggcttt 
acaacttca agttcgtta acaaaacac aaacgaatc 
cattccggg gaaaaaccg tacgagtgt gacgtatgc 
aaaatgaag ttttcgcgg tcggggatt ctagccaga 
cataaaagg acgcacacg ggagagaaa ccttacgtt 
tgcaagttt tgtacaaaa gcattttca cagtcgaat 
gatctgacg tcacatttg cggattcac acgggggaa 
aaaccgtac atttgcgat gtatgtgga caggcattt 
aggcagagt tctgcgctt aaaactcat aagaaaacg 
catcctgga cgagaggtt attgacacg aaaattggg 
gtcttgggg gtcatgcat acccccttt ttaacgtaa 
taaagtaag gggaaaagt tatgtttac caattagtt 
ttttattta tttttttaa tatatctac caccttgta 
attaattaa ttaattaat tttgccaac attttatca 
actgttatt tattttaaa gcgttttgc tcaaaataa 
aatccagat tagtta

    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