Status
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Gene information
General information
TC001292 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: 14016336..14019511
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
    		TC001292
    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
    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_00237

    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: 100.0% (includes death as pupa, adult)

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

    adult lethality - Number of animals showing the phenotype: 4 (9 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 3 (11 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: 90.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 100.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 3 (11 dpi)
    Days post injection

    pupal molt not fulfilled (died as prepupa) - Number of animals showing the phenotype: 6 (11 dpi)
    Days post injection


    not fulfilled (died as prepupa) - Number of animals showing the phenotype: 1 (16 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC001292 RA
      MPTNVESPP CKKSNVEVM TPHRLTVAI LIRDYCLFR 
DSDRFSCED DGVLKARYR RDFCVLILK LLQSPDLSL 
EELRNILVS TKYEVHQSV IEAFDETLA SLYTNGTGT 
MLDIIDSFN RIMTFNENI AAGIEPNCF VSKSSIVGY 
YLRRLIVNF DKLTFSEVT SVYLTFKRY YEDWQKSLT 
TRDQIAIEV NKVICPDDW SANRNQWSR RQAELFIAT 
QAALLTNNE EKALPPQEL HNRISNLLQ SNRSLAEAH 
FLSYLNYLR VKEFCGAID SLYHCFDRS TLTDTKISS 
EDKSKVYRF AALNLAILH HHFGHKEEA LASLREAIK 
SSQVANDNV CLQHALCWL YRLTPVNKE KLLEHSVAK 
SFELNLSYT ASLGIQTFV QYACLISGH PHQIFETLT 
KGDLINCQH ILRDLISNS YAVKSALWQ FYGKTEMSS 
LWSQLLFYL NIDNGRSND GKAVYGEGF CLAICNVAN 
HLLMQGNYN LVNTVLNFA KDRFPNEPN SHIWMLCEN 
LFIFVRALH HENWSEAEA AAQKILVVD KWEGYLRLA 
ELYYYKQDY TEAHRFVDI LINRFHSDN KYKLKIFYY 
VRAKILLAE IQFSSCYPD KVSPEIMTL LSNCLLDTD 
KHNLDYHSA LIHLHIANI QLSLGMTSQ ALKILDRCL 
VQILAHGGN FDRARAVLL YVKCLVAHS AQLEATERR 
EIILNAAQM LEKVKEDFR AVEAYSRVK DVLYLQAQL 
YNSVDLRSE RNRCALEFR QLDEERTTK NYYTLVRFL
    CDS sequence
    • >TC001292 RA
      atgcccaca aacgtggaa agtccacct tgtaaaaaa 
tccaacgtt gaagtaatg actccccat agactaacc 
gttgcaatt ttaatccgt gattattgc ttatttcgg 
gattcagac cggtttagc tgtgaagat gatggggtg 
cttaaggcc agatacaga cgagacttt tgcgtttta 
atattaaag ttattgcaa agtcctgat cttagttta 
gaagagtta cggaacatt ttagtctca actaaatat 
gaagtgcac cagagcgtt attgaggct tttgatgag 
acactagcc agtttatat acaaacgga acaggaact 
atgcttgat attattgat agttttaac aggatcatg 
actttcaat gaaaacata gcggcagga atagaacca 
aactgtttt gtaagcaag agtagcatt gttggttac 
tatttacga agacttatc gtaaacttt gataaactc 
actttttcg gaagttacg agtgtttat ttaactttt 
aaaaggtac tatgaagat tggcaaaaa agtttaaca 
acacgtgac cagattgca atagaagtt aataaagtt 
atttgtccc gatgattgg agtgctaac agaaatcag 
tggtcaagg cgtcaagct gagttattt atagcgact 
caagccgcc cttttaacc aataatgaa gaaaaagca 
ttgccacct caagaactt cacaataga atctccaat 
ttgctccaa tcaaaccga tctttggca gaagctcac 
tttttgtca tacttaaat tacttaaga gtgaaggaa 
ttttgcggc gccattgat agtttatat cactgtttc 
gacagaagc actttaacc gataccaaa atctcatcg 
gaggataaa agtaaagtt tacagattt gcggcactc 
aatctagca attttgcac caccatttc ggccacaag 
gaagaagct ctcgcctca cttagagag gcaataaaa 
agctcccaa gttgcaaac gacaacgtt tgcctccaa 
cacgccctc tgttggctc taccgcctg accccagtc 
aacaaagaa aaattactc gaacactct gtagccaaa 
agtttcgaa ctcaaccta tcctacacc gcatcactc 
ggtattcaa actttcgtc caatacgcg tgtcttatc 
tcaggccat ccgcaccaa attttcgaa acgttaaca 
aaaggcgat ttgattaat tgccaacac attttgcgc 
gatcttatt tcgaacagt tatgcggtc aaatcagcc 
ctttggcag ttttacggc aagacggaa atgtcgtca 
ctttggagc cagttattg ttttattta aatattgat 
aatggacgt agtaatgac gggaaggcg gtctatggt 
gaaggtttc tgtttggcg atttgtaac gtggccaat 
caccttcta atgcaagga aattacaat ttggtaaac 
actgtgttg aattttgcg aaagatcgg tttccaaac 
gagccaaat tcgcacatt tggatgttg tgcgaaaat 
ttatttatt ttcgtgcga gcgttacat catgaaaat 
tggagcgaa gctgaagct gcagctcag aaaattcta 
gtcgtggat aagtgggag ggttacttg agactagct 
gagttgtac tactacaag caggattac actgaagcg 
caccgattt gttgatatt ttgataaat cgttttcac 
agcgataac aaatacaaa cttaaaatt ttctattac 
gtgagggcc aaaattttg ctcgcggaa atccaattt 
tccagttgt tatcccgat aaagtctca ccggaaatt 
atgactctt cttagcaat tgtctccta gacactgat 
aaacacaat ttggattat cattccgct ttgattcac 
ttgcacatt gccaatatt cagttaagt ttgggaatg 
actagtcag gccctaaaa attttggac cggtgtctt 
gttcaaatt ctggcacat gggggcaat ttcgataga 
gctagggcc gttttgttg tacgttaaa tgtctggtg 
gcgcattct gcgcaactt gaagccact gaaagacgg 
gagattatt ttaaacgct gcgcaaatg ttggagaaa 
gtgaaggag gattttagg gctgtggag gcttattcc 
agggtcaaa gacgtgtta tatttgcag gcgcaactt 
tacaatagc gttgatttg cggagtgag agaaacaga 
tgcgctttg gaatttcgg caattggat gaagaaaga 
acaacgaaa aattattat accctagtt aggtttttg 
taa
    mRNA sequence
    • >TC001292 RA
      taaaaatgc ccacaaacg tggaaagtc caccttgta 
aaaaatcca acgttgaag taatgactc cccatagac 
taaccgttg caattttaa tccgtgatt attgcttat 
ttcgggatt cagaccggt ttagctgtg aagatgatg 
gggtgctta aggccagat acagacgag acttttgcg 
ttttaatat taaagttat tgcaaagtc ctgatctta 
gtttagaag agttacgga acattttag tctcaacta 
aatatgaag tgcaccaga gcgttattg aggcttttg 
atgagacac tagccagtt tatatacaa acggaacag 
gaactatgc ttgatatta ttgatagtt ttaacagga 
tcatgactt tcaatgaaa acatagcgg caggaatag 
aaccaaact gttttgtaa gcaagagta gcattgttg 
gttactatt tacgaagac ttatcgtaa actttgata 
aactcactt tttcggaag ttacgagtg tttatttaa 
cttttaaaa ggtactatg aagattggc aaaaaagtt 
taacaacac gtgaccaga ttgcaatag aagttaata 
aagttattt gtcccgatg attggagtg ctaacagaa 
atcagtggt caaggcgtc aagctgagt tatttatag 
cgactcaag ccgcccttt taaccaata atgaagaaa 
aagcattgc cacctcaag aacttcaca atagaatct 
ccaatttgc tccaatcaa accgatctt tggcagaag 
ctcactttt tgtcatact taaattact taagagtga 
aggaatttt gcggcgcca ttgatagtt tatatcact 
gtttcgaca gaagcactt taaccgata ccaaaatct 
catcggagg ataaaagta aagtttaca gatttgcgg 
cactcaatc tagcaattt tgcaccacc atttcggcc 
acaaggaag aagctctcg cctcactta gagaggcaa 
taaaaagct cccaagttg caaacgaca acgtttgcc 
tccaacacg ccctctgtt ggctctacc gcctgaccc 
cagtcaaca aagaaaaat tactcgaac actctgtag 
ccaaaagtt tcgaactca acctatcct acaccgcat 
cactcggta ttcaaactt tcgtccaat acgcgtgtc 
ttatctcag gccatccgc accaaattt tcgaaacgt 
taacaaaag gcgatttga ttaattgcc aacacattt 
tgcgcgatc ttatttcga acagttatg cggtcaaat 
cagcccttt ggcagtttt acggcaaga cggaaatgt 
cgtcacttt ggagccagt tattgtttt atttaaata 
ttgataatg gacgtagta atgacggga aggcggtct 
atggtgaag gtttctgtt tggcgattt gtaacgtgg 
ccaatcacc ttctaatgc aaggaaatt acaatttgg 
taaacactg tgttgaatt ttgcgaaag atcggtttc 
caaacgagc caaattcgc acatttgga tgttgtgcg 
aaaatttat ttattttcg tgcgagcgt tacatcatg 
aaaattgga gcgaagctg aagctgcag ctcagaaaa 
ttctagtcg tggataagt gggagggtt acttgagac 
tagctgagt tgtactact acaagcagg attacactg 
aagcgcacc gatttgttg atattttga taaatcgtt 
ttcacagcg ataacaaat acaaactta aaattttct 
attacgtga gggccaaaa ttttgctcg cggaaatcc 
aattttcca gttgttatc ccgataaag tctcaccgg 
aaattatga ctcttctta gcaattgtc tcctagaca 
ctgataaac acaatttgg attatcatt ccgctttga 
ttcacttgc acattgcca atattcagt taagtttgg 
gaatgacta gtcaggccc taaaaattt tggaccggt 
gtcttgttc aaattctgg cacatgggg gcaatttcg 
atagagcta gggccgttt tgttgtacg ttaaatgtc 
tggtggcgc attctgcgc aacttgaag ccactgaaa 
gacgggaga ttattttaa acgctgcgc aaatgttgg 
agaaagtga aggaggatt ttagggctg tggaggctt 
attccaggg tcaaagacg tgttatatt tgcaggcgc 
aactttaca atagcgttg atttgcgga gtgagagaa 
acagatgcg ctttggaat ttcggcaat tggatgaag 
aaagaacaa cgaaaaatt attataccc tagttaggt 
ttttgtaat ttgtgaaat aaacgcatt aattaaga

    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