Status
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Gene information
General information
TC005587 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_007423.3: 10989451..10994430
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
    		TC005587
    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
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_09377

    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)

    eclosion not fulfilled (with pupal and adult features) - Number of animals showing the phenotype: 2 (3 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 1 (9 dpi)
    Days post injection

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 embryo/egg with embryonic tissue potentially present, no cuticle, no fluorescence - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    larval musculature pattern irregular - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     embryo/egg without visible larval cuticle in cuticle preparation - Penetrance (percentage of animals/eggs on slide): less than 30%
    larva segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    larva bristle pattern irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    thorax segment unilateral potentiallyfused - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs sometimes number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    legs structure irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    legs fused - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax fused - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    abdomen segment number decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): 50% - 80%
    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
    • >TC005587 RA
      MVWQKPLIS PPTTTQHPN RPSGPAKAP IFRTTFHEG 
DPTGGESTE SCDENDNMT DCRHVRQAV DLQKVKKAL 
IKTGLTTEC EQCKKMPKV ASEMEPEFE FDNSLWLCL 
RCGNQACGR NKNMHALEH FKTPHSDSH AICVDTTNW 
SVWCYDCDE VVNATCKKK LLEAVEYLQ KLAEGKSNA 
LPKPAEHQV MDLVPVTSS MSFGNMFNF TASNVPRPR 
GLMNLGNTC FFNSVVQCL AQTPYLLNL LQETSEPGQ 
FFQLPGGKL NPQDSDSPV LEPLTGELE KWRPLMATL 
AETIVEVNN GRSEAYVPR LLLSKLTAR MPQFGGGNQ 
HDSHELLRH LLEAVREED LRRYQSVIL DRLGLNTKT 
DPSTVEGEK KKIIKFYGQ QASDLLLPT EQVFRGVLV 
STLQCQECQ HTSHRDEFF LDLSLPITE KQLPPVLRR 
KAEEIEDNK PSRHQIKKE KRAERKKNK KQKSHKNVN 
IVMGPSNQP TAGLDVDMD KSDSESDAD VEDNVEVSE 
EVTKGMESG YNSDKVDNS SPDSNNRGI SPEMRIDDS 
GVPSPAIGM LSASHGTPD NSPASSETN IDMGSPLID 
HCSPEEDGN EYFDRPESR LAFVNNKNV DLKTGLSKL 
SLLNDGDSS KVGTFCNDK MDDDDNFEG ACGGEDPKD 
EKMDEDDED VDLWTNTMS ARYQCEEGE YSVQSCLNQ 
FTACELMTG NNKVSCELC TKRHGGPDK KTVYTNATK 
QLLIYNPPA VLILHLKRF QVYRFRSAK VPKFVKFPT 
LLDLAPFCS KRSQNLPTF EAGQTKVLY SLYGVVEHS 
GSIHGGHYV AYVKVRPKL EENSYRWQF LPKNQKNEK 
GQAPKGAQG EPEVPSGKW YYISDSHVS EASETRVLS 
AQAYLLFYE RIL
    CDS sequence
    • >TC005587 RA
      atggtgtgg caaaaaccg ctgatatcg ccgcccacg 
accacgcaa cacccgaat cgcccttcc ggccccgca 
aaagcgccc atttttcgc accacattt catgaaggc 
gaccccacg gggggcgaa tcgaccgaa tcctgcgac 
gagaacgac aacatgacg gattgccgt cacgtccgc 
caggccgtg gacttgcaa aaggtcaag aaggcccta 
atcaagacc ggactgacc accgaatgc gagcaatgc 
aagaagatg cccaaagtc gcgtccgaa atggaaccc 
gaattcgag ttcgataac tcgctatgg ctgtgtttg 
cggtgcggg aaccaggcc tgcggccgg aacaaaaac 
atgcacgcc ttggagcac ttcaagact ccgcactcg 
gactcgcac gccatttgc gtcgatacg accaactgg 
agtgtctgg tgttatgac tgtgatgaa gtcgtcaat 
gcgacttgc aagaaaaaa ctgctggaa gccgtcgaa 
tacctccag aagctggcc gagggcaag agcaacgcg 
ctgcccaaa cccgccgag caccaagtg atggattta 
gtcccggta acttcgagc atgagtttt gggaacatg 
ttcaacttc accgcttcg aacgtacct cgaccgcgt 
ggcttaatg aacctaggc aatacgtgt ttctttaat 
tcagtagtt caatgttta gctcaaacg ccctatttg 
ttaaacctt ttacaagaa acctccgaa ccggggcag 
tttttccaa ctaccgggg ggcaagttg aacccccag 
gatagcgac tccccggta cttgagccc ttgaccggg 
gagttggag aagtggcgc ccgcttatg gccacgttg 
gccgaaact atagtcgaa gtgaacaat ggacgcagt 
gaagcatac gttcctcgt ttacttctc tccaaacta 
accgctcga atgccgcag tttggcggc ggcaaccaa 
cacgactcg cacgagctc ctgcgccac ttactcgag 
gccgtgcga gaggaggac ttgcgccgc taccaatcg 
gttatcctc gaccggtta ggtttgaac acgaaaacc 
gacccgagc acggtcgag ggtgagaag aagaaaata 
atcaagttt tacggccaa caagcttcc gatctattg 
ctaccaacc gaacaagtt ttccgaggg gtgcttgtt 
agcacgctg cagtgccag gagtgccaa cacacctcg 
caccgcgac gagtttttc ctagattta agtctaccg 
atcactgaa aaacaacta ccgccggtt ttgcgacgc 
aaagccgag gaaatcgag gataataaa ccgtcacgc 
caccagatc aagaaggag aaacgtgcg gaaagaaag 
aaaaacaag aagcaaaag tcgcataaa aacgtcaat 
attgtcatg gggcccagc aaccagccc acggccggg 
cttgacgtg gacatggat aagtcggat agtgagtcg 
gacgccgac gttgaggac aacgtcgag gtgtccgag 
gaggtgacc aaagggatg gagtcgggg tataattcg 
gacaaggtc gataacagc agccccgac tcgaacaat 
cgcggtatt tcccccgaa atgcgcatt gacgacagt 
ggggttccc agtcccgcg attgggatg cttagtgcg 
tcgcacggc accccggac aatagcccg gcctcgagt 
gagaccaac atcgacatg gggagcccc cttatcgat 
cattgtagt cccgaagaa gacggtaat gaatatttc 
gacaggcct gagtcgaga ctggccttc gtgaacaac 
aaaaacgtc gatttgaag acaggtttg agtaaatta 
agtctactg aacgatggt gattcgagt aaagttggt 
acgttttgc aacgataag atggacgat gatgataat 
ttcgaaggt gcctgtggg ggcgaggat ccaaaggat 
gaaaagatg gatgaggac gacgaagac gtggacctg 
tggaccaac acgatgtcg gcgcgttac cagtgcgaa 
gaaggcgaa tactctgtc caatcctgc ctcaaccag 
ttcacagct tgcgaactg atgaccggt aacaacaaa 
gtcagctgc gagctgtgc acgaagcgc cacggtggc 
cccgataag aaaaccgtc tacaccaac gccaccaag 
cagctcctt atctacaac ccccctgcc gttctaatc 
ctgcacttg aagcgtttc caagtgtac cgatttcgc 
tccgccaaa gtccccaaa ttcgtcaag ttccccacg 
cttctcgat ctcgcgccg ttctgttcg aaacgctcc 
caaaacctc ccgactttc gaggccggt cagacgaaa 
gtcttgtac tctttatac ggggttgtg gagcatagc 
gggtccatt cacgggggc cactacgtg gcctacgtg 
aaagtgcgg cccaagttg gaggagaac agctatagg 
tggcagttt ttgcccaaa aatcagaaa aacgagaag 
gggcaggcg cccaagggg gcgcaaggc gagcccgag 
gtgccctcc gggaagtgg tactatatc agcgattcg 
cacgtttcc gaagccagc gagacgcgg gttttgagc 
gcgcaagcc tatttgctg ttctatgag aggatcttg 
taa
    mRNA sequence
    • >TC005587 RA
      ggaatggtg tggcaaaaa ccgctgata tcgccgccc 
acgaccacg caacacccg aatcgccct tccggcccc 
gcaaaagcg cccattttt cgcaccaca tttcatgaa 
ggcgacccc acggggggc gaatcgacc gaatcctgc 
gacgagaac gacaacatg acggattgc cgtcacgtc 
cgccaggcc gtggacttg caaaaggtc aagaaggcc 
ctaatcaag accggactg accaccgaa tgcgagcaa 
tgcaagaag atgcccaaa gtcgcgtcc gaaatggaa 
cccgaattc gagttcgat aactcgcta tggctgtgt 
ttgcggtgc gggaaccag gcctgcggc cggaacaaa 
aacatgcac gccttggag cacttcaag actccgcac 
tcggactcg cacgccatt tgcgtcgat acgaccaac 
tggagtgtc tggtgttat gactgtgat gaagtcgtc 
aatgcgact tgcaagaaa aaactgctg gaagccgtc 
gaatacctc cagaagctg gccgagggc aagagcaac 
gcgctgccc aaacccgcc gagcaccaa gtgatggat 
ttagtcccg gtaacttcg agcatgagt tttgggaac 
atgttcaac ttcaccgct tcgaacgta cctcgaccg 
cgtggctta atgaaccta ggcaatacg tgtttcttt 
aattcagta gttcaatgt ttagctcaa acgccctat 
ttgttaaac cttttacaa gaaacctcc gaaccgggg 
cagtttttc caactaccg gggggcaag ttgaacccc 
caggatagc gactccccg gtacttgag cccttgacc 
ggggagttg gagaagtgg cgcccgctt atggccacg 
ttggccgaa actatagtc gaagtgaac aatggacgc 
agtgaagca tacgttcct cgtttactt ctctccaaa 
ctaaccgct cgaatgccg cagtttggc ggcggcaac 
caacacgac tcgcacgag ctcctgcgc cacttactc 
gaggccgtg cgagaggag gacttgcgc cgctaccaa 
tcggttatc ctcgaccgg ttaggtttg aacacgaaa 
accgacccg agcacggtc gagggtgag aagaagaaa 
ataatcaag ttttacggc caacaagct tccgatcta 
ttgctacca accgaacaa gttttccga ggggtgctt 
gttagcacg ctgcagtgc caggagtgc caacacacc 
tcgcaccgc gacgagttt ttcctagat ttaagtcta 
ccgatcact gaaaaacaa ctaccgccg gttttgcga 
cgcaaagcc gaggaaatc gaggataat aaaccgtca 
cgccaccag atcaagaag gagaaacgt gcggaaaga 
aagaaaaac aagaagcaa aagtcgcat aaaaacgtc 
aatattgtc atggggccc agcaaccag cccacggcc 
gggcttgac gtggacatg gataagtcg gatagtgag 
tcggacgcc gacgttgag gacaacgtc gaggtgtcc 
gaggaggtg accaaaggg atggagtcg gggtataat 
tcggacaag gtcgataac agcagcccc gactcgaac 
aatcgcggt atttccccc gaaatgcgc attgacgac 
agtggggtt cccagtccc gcgattggg atgcttagt 
gcgtcgcac ggcaccccg gacaatagc ccggcctcg 
agtgagacc aacatcgac atggggagc ccccttatc 
gatcattgt agtcccgaa gaagacggt aatgaatat 
ttcgacagg cctgagtcg agactggcc ttcgtgaac 
aacaaaaac gtcgatttg aagacaggt ttgagtaaa 
ttaagtcta ctgaacgat ggtgattcg agtaaagtt 
ggtacgttt tgcaacgat aagatggac gatgatgat 
aatttcgaa ggtgcctgt gggggcgag gatccaaag 
gatgaaaag atggatgag gacgacgaa gacgtggac 
ctgtggacc aacacgatg tcggcgcgt taccagtgc 
gaagaaggc gaatactct gtccaatcc tgcctcaac 
cagttcaca gcttgcgaa ctgatgacc ggtaacaac 
aaagtcagc tgcgagctg tgcacgaag cgccacggt 
ggccccgat aagaaaacc gtctacacc aacgccacc 
aagcagctc cttatctac aacccccct gccgttcta 
atcctgcac ttgaagcgt ttccaagtg taccgattt 
cgctccgcc aaagtcccc aaattcgtc aagttcccc 
acgcttctc gatctcgcg ccgttctgt tcgaaacgc 
tcccaaaac ctcccgact ttcgaggcc ggtcagacg 
aaagtcttg tactcttta tacggggtt gtggagcat 
agcgggtcc attcacggg ggccactac gtggcctac 
gtgaaagtg cggcccaag ttggaggag aacagctat 
aggtggcag tttttgccc aaaaatcag aaaaacgag 
aaggggcag gcgcccaag ggggcgcaa ggcgagccc 
gaggtgccc tccgggaag tggtactat atcagcgat 
tcgcacgtt tccgaagcc agcgagacg cgggttttg 
agcgcgcaa gcctatttg ctgttctat gagaggatc 
ttgtaagct ttgaccgtg ctgtttatt ttagcttct 
ttatacata taattattg ttttggaat tgatttttg 
ggtcttacg gtggaattt tattgagaa attttatca 
tttcaatcc gaaatagcc gcttgataa ttgtgagga 
gattgacag ttttttaga tttattgtt acattgtaa 
gcgttttct gggttcatt atgtaaact gtaacacct 
cttttggtc tgtgcatac tagtgtaat tattttttt 
aagcgattt ctccgaatg tattcagca aattaaata 
aactgtaaa ggacgag

    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