Status
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Gene information
General information
TC008244 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_007419.2: 7187873..7192181
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
    		TC008244
    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
    {{ 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.
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_04450

    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: 3 (3 dpi)
    Days post injection

    adult nutritional state bad (cachectic) - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

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

    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): less than 30%
    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): 30% - 50%
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 90.0% (includes death as larva, prepupa, pupa, adult)

    eclosion not fulfilled (died as pupa) - Number of animals showing the phenotype: 4 (16 dpi)
    Days post injection

    eclosion delayed (still pupa) - Number of animals showing the phenotype: 5 (16 dpi)
    Days post injection

    adult lethality - Number of animals showing the phenotype: 4 (22 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008244 RA
      MELGVLKGP SELIASRVK AFKKCLRVA TDCLTNKDY 
PNAEMIYGG ILADLHKDC IVEVLNLND LELFSLHIC 
FAYSSIGAN YKSEQALVI LNSIHEPIK LPLVPYLKA 
FIHISNDRL SFANDELQF CNSLLKDGY NFKSNDILN 
EKIVPEISD EFLKLKLNG LKFICDLLL AREDNTNLK 
RCFKENWLK IGTLCEPDF ESLTKNTVK ETPKEEKVT 
KKTKKQTGA IKKMEKPAQ SNKSIAIQT APPKGINVS 
VQTMEKDID KQLLAAVLE IKNRLNNIQ NKKDGEIKQ 
LQKKNNELN EKLVATNST GEEKSPEFE FLKDQYLVL 
EKKFEQTQK QNELLQKLL IEQMQQRYQ MQKSIYQMF 
QEKCDYRFS YLSDLYQYL YPSDKPTPE ECKQEAFLW 
KNTQDKVSE AKKLFEAYY KTVDDLIIA KKYAEVKIS 
DWPGIPNIP NDIQDVIYR SFKSMVQFN KNIYSATRP 
QQQYLSVLG NYGNFKEYV RKSNNYSNN YKSYHQDGR 
TTGSPSYSQ TPPPPPPSN TNGYPPSGN GCPPPANQN 
GYHPPSGHR YASPTPNNG YPPSSNGYP PSSNGYPPS 
SNGYPPPPP NVYQPQPPN IRKQVSPPS PPRVNSVNV 
YQLEQELLK FLQITFDSV PETDLLEAI CLVRDNNNG 
GNLIGIPKQ VLVPEIKKA LKMKSAKNA WSNVSQPAW 
HNDHSEHKC CICFEDFDP SNSHMLSCQ HEFHKQCIT 
NWLKRQSAC PVCRVHAVI DEEFPPLKS
    CDS sequence
    • >TC008244 RA
      atggagtta ggcgtttta aagggtccc agcgaactt 
atagcatct cgagtgaaa gctttcaaa aaatgcctc 
agagtggcc actgattgt ctaacaaat aaagattat 
ccaaacgct gaaatgatt tacggaggt attttggcc 
gatttgcac aaagattgc attgttgag gttctgaat 
ttgaacgat cttgagctt ttctctttg catatttgc 
tttgcttat tcctcaatt ggagctaat tacaaatca 
gaacaagct ttggttatt ttgaactcc atacatgaa 
cctataaaa cttccattg gtgccttat ctcaaagcg 
tttattcat atctcgaac gatagactg tcgtttgct 
aatgacgag ttacagttt tgtaatagt ttattgaag 
gatggttat aatttcaag tcaaatgat atattgaat 
gagaagatc gtacctgaa ataagcgac gaattttta 
aagttgaaa ctaaacgga ttgaaattt atttgtgat 
ttgttgttg gctagagaa gataacacc aacttgaag 
agatgtttt aaagaaaat tggttgaaa attggtact 
ctttgtgaa cccgatttt gaaagttta acaaagaat 
actgtaaaa gagacccca aaagaggaa aaggtcaca 
aagaaaacc aaaaaacaa accggagca atcaaaaaa 
atggaaaaa ccagcccaa agtaataaa agtattgct 
atccaaact gctccccca aaagggata aacgtttct 
gtccaaaca atggagaaa gacatcgat aagcaatta 
ttggcagct gttcttgaa attaaaaat agattaaat 
aacatacaa aacaagaaa gatggcgaa atcaaacaa 
cttcagaag aaaaacaac gaacttaat gaaaaactt 
gttgctaca aatagcacg ggggaggag aaatccccc 
gagtttgaa tttttgaaa gaccagtat cttgtccta 
gagaaaaaa tttgagcaa acacagaaa caaaacgaa 
ctgttgcaa aaactgctc atcgagcaa atgcaacaa 
agatatcaa atgcagaaa agtatctac caaatgttt 
caagaaaaa tgtgactat aggttttca tacttgagc 
gatctttac caatatttg taccctagc gataaacca 
acgccagaa gaatgcaaa caggaagcg ttcttgtgg 
aaaaataca caggataag gtttcagaa gcaaaaaaa 
ctatttgag gcatattat aaaacagtt gatgaccta 
ataattgca aaaaaatat gctgaagtt aaaataagc 
gactggcct ggaataccc aatattcca aacgacatt 
caagatgtt atttaccgc agttttaag agtatggtt 
caatttaat aaaaacatt tacagtgct acgcgtcca 
caacaacag tatctgtct gtgttgggt aattatgga 
aacttcaaa gaatacgtg cgaaaatcc aataattac 
tccaataac tacaaaagc taccatcaa gacggaaga 
actacaggg tccccgtca tattcacaa actccacct 
cctcctccc ccatccaat accaatgga tatcctcca 
tctggaaat ggatgtcct cctcctgcc aaccaaaat 
ggatatcat cctccatct ggccataga tatgcttcc 
ccaaccccc aacaatgga tatcctccc tcctctaat 
ggatatcct ccctcctct aatggatat cctccctcc 
tctaatgga tatcctcct ccacccccc aacgtatat 
cagccacag ccacctaat attaggaaa caggtgtcg 
cccccgtca ccccctaga gttaattct gttaatgtg 
tatcaacta gaacaagaa ttgcttaaa tttcttcaa 
attactttc gatagcgtt cccgaaact gatttgcta 
gaagcgatt tgcctagtt cgcgataac aataacggt 
ggtaatctt ataggaatt cctaaacaa gtactagtt 
cctgaaatt aagaaagct ttgaaaatg aaaagtgcg 
aaaaatgca tggagcaat gtgtctcaa cctgcctgg 
cacaacgat catagtgaa cataaatgc tgtatttgt 
tttgaagat tttgatcct agtaacagc catatgcta 
tcgtgtcag catgagttt cataaacag tgcattact 
aactggctg aaacgacaa agtgcctgt ccggtgtgt 
agagtgcac gccgttatt gatgaggag tttccacca 
ctgaagtct taa
    mRNA sequence
    • >TC008244 RA
      atgtttttg accatttca attaacgtt tgtcctttt 
gtttacgct caacgtcag tcgaattta aacaagttc 
aaatttaat atcaaacag tcaaaattc tttccaaaa 
aattgaata attgcatga aagatggag ttaggcgtt 
ttaaagggt cccagcgaa cttatagca tctcgagtg 
aaagctttc aaaaaatgc ctcagagtg gccactgat 
tgtctaaca aataaagat tatccaaac gctgaaatg 
atttacgga ggtattttg gccgatttg cacaaagat 
tgcattgtt gaggttctg aatttgaac gatcttgag 
cttttctct ttgcatatt tgctttgct tattcctca 
attggagct aattacaaa tcagaacaa gctttggtt 
attttgaac tccatacat gaacctata aaacttcca 
ttggtgcct tatctcaaa gcgtttatt catatctcg 
aacgataga ctgtcgttt gctaatgac gagttacag 
ttttgtaat agtttattg aaggatggt tataatttc 
aagtcaaat gatatattg aatgagaag atcgtacct 
gaaataagc gacgaattt ttaaagttg aaactaaac 
ggattgaaa tttatttgt gatttgttg ttggctaga 
gaagataac accaacttg aagagatgt tttaaagaa 
aattggttg aaaattggt actctttgt gaacccgat 
tttgaaagt ttaacaaag aatactgta aaagagacc 
ccaaaagag gaaaaggtc acaaagaaa accaaaaaa 
caaaccgga gcaatcaaa aaaatggaa aaaccagcc 
caaagtaat aaaagtatt gctatccaa actgctccc 
ccaaaaggg ataaacgtt tctgtccaa acaatggag 
aaagacatc gataagcaa ttattggca gctgttctt 
gaaattaaa aatagatta aataacata caaaacaag 
aaagatggc gaaatcaaa caacttcag aagaaaaac 
aacgaactt aatgaaaaa cttgttgct acaaatagc 
acgggggag gagaaatcc cccgagttt gaatttttg 
aaagaccag tatcttgtc ctagagaaa aaatttgag 
caaacacag aaacaaaac gaactgttg caaaaactg 
ctcatcgag caaatgcaa caaagatat caaatgcag 
aaaagtatc taccaaatg tttcaagaa aaatgtgac 
tataggttt tcatacttg agcgatctt taccaatat 
ttgtaccct agcgataaa ccaacgcca gaagaatgc 
aaacaggaa gcgttcttg tggaaaaat acacaggat 
aaggtttca gaagcaaaa aaactattt gaggcatat 
tataaaaca gttgatgac ctaataatt gcaaaaaaa 
tatgctgaa gttaaaata agcgactgg cctggaata 
cccaatatt ccaaacgac attcaagat gttatttac 
cgcagtttt aagagtatg gttcaattt aataaaaac 
atttacagt gctacgcgt ccacaacaa cagtatctg 
tctgtgttg ggtaattat ggaaacttc aaagaatac 
gtgcgaaaa tccaataat tactccaat aactacaaa 
agctaccat caagacgga agaactaca gggtccccg 
tcatattca caaactcca cctcctcct cccccatcc 
aataccaat ggatatcct ccatctgga aatggatgt 
cctcctcct gccaaccaa aatggatat catcctcca 
tctggccat agatatgct tccccaacc cccaacaat 
ggatatcct ccctcctct aatggatat cctccctcc 
tctaatgga tatcctccc tcctctaat ggatatcct 
cctccaccc cccaacgta tatcagcca cagccacct 
aatattagg aaacaggtg tcgcccccg tcaccccct 
agagttaat tctgttaat gtgtatcaa ctagaacaa 
gaattgctt aaatttctt caaattact ttcgatagc 
gttcccgaa actgatttg ctagaagcg atttgccta 
gttcgcgat aacaataac ggtggtaat cttatagga 
attcctaaa caagtacta gttcctgaa attaagaaa 
gctttgaaa atgaaaagt gcgaaaaat gcatggagc 
aatgtgtct caacctgcc tggcacaac gatcatagt 
gaacataaa tgctgtatt tgttttgaa gattttgat 
cctagtaac agccatatg ctatcgtgt cagcatgag 
tttcataaa cagtgcatt actaactgg ctgaaacga 
caaagtgcc tgtccggtg tgtagagtg cacgccgtt 
attgatgag gagtttcca ccactgaag tcttaattt 
ttgtttgag ttgtgttat ttctatagt ttattgttc 
ttatgtttt gccgctttt atgatgtta acacaatga 
tatattcta ttaattagc ccaaaatta agtagttat 
tattattat tcagtattt tcaataaag tattttcaa 
tatc

    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