Status
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Gene information
General information
TC008246 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: 7204893..7209919
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
    		TC008246
    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
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    Email
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    * : mandatory fields
    For help on how to submit larger datasets or non experimental data please contact us.
    iBeetle screen iB_01326

    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: 10.0% (includes death as pupa, adult)

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

    Analysis of embryonic musculature and early development
    number of eggs/embryos/larvae on slide: > 50 larval musculature irregular - 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%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     head capsule size decreased - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head appendages shape irregular - Penetrance (percentage of animals/eggs on slide): 30% - 50%

    head appendages sometimes randomnot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    antenna randomnot present - Penetrance (percentage of animals/eggs on slide): 30% - 50%
    head irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    thorax cuticle dorsal irregular - Penetrance (percentage of animals/eggs on slide): less than 30%

    prothoracic leg not present - Penetrance (percentage of animals/eggs on slide): 50% - 80%

    thorax irregular - Penetrance (percentage of animals/eggs on slide): less than 30%
    abdomen segment number decreased - 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): more than 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: 10.0% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 40.0% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 1 (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: 3 (19 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC008246 RA
      MSIPQSDVE RRKQISVRG IAQVGDVNE IKKTFNRHL 
HYTLVKDRN VATARDYYF ALAHTVKDH LVSRWIRTQ 
QYYYEKDPK RVYYLSLEF YMGRSLSNT MINLGIQNS 
VDEALYQLG LDIEELEEL EEDAGLGNG GLGRLAACF 
LDSMATLGM AAYGYGIRY EYGIFAQKI INGEQQEEP 
DDWLRFGNP WEKARPEYM LPVNFYGNV VDTPNGKKW 
VNTQVIFAL PYDSPIPGY NNNVVNTLR LWSAKSPID 
FNLKFFNDG DYIQAVLDR NLAENISRV LYPNDNNFG 
GKELRLKQE YFMCAATLQ DIIRRFKAA KFGTREYTR 
TDFDLLPDK VAIQLNDTH PSLAIPELM RILVDIEGL 
PWNKAWNIT VKTCAYTNH TVLPEALER WPVEMLQNI 
LPRHLEIIY QINHLHLEE VLKKWPGDL DRMRRMSLI 
EEEGGKRVN MAHLSIVGS HAVNGVARI HSEIIKSDL 
FKDFYEMTP EKFQNKTNG ITPRRWLLM CNPGLSDLI 
SDKIGEDWV VHLDQLSKL TQWAKDPNF QRAVMKVKQ 
ENKLKLAQL LEKEYGVKI NPGSMFDIH VKRIHEYKR 
QLLNCLHII TLYNRIKRN PSAKCTPRT VMIGGKAAP 
GYYTAKKII KLINCVANV VNNDPMVGD KLKVIFLEN 
YRVSLAEKI IPAADLSEQ ISTAGTEAS GTGNMKFQL 
NGALTIGTL DGANVEMAE EMGRENIFI FGMTVEEVE 
ELKRKGYNA YDYYNANPE LKLVVDQIQ NGFFTPNNP 
DEFKDLADI LLKYDRFFL LADYDAYIK KQEEASNVY 
QDQAKWVEM AIHNIASSG KFSSDRTII EYGREIWGV 
EPSYEKLPA PHEPRELTL KEN
    CDS sequence
    • >TC008246 RA
      atgtccatc ccccaatcg gacgtcgaa agacgcaaa 
caaatcagt gtccgaggg atcgcccaa gtgggcgac 
gtcaacgaa atcaagaag accttcaac aggcatctt 
cactacacc ctcgtcaag gacaggaat gttgccact 
gcaagagat tactacttc gctttggcg cacacggtg 
aaggaccat ttggtctcg agatggatc aggacgcag 
cagtattac tacgagaag gaccccaag agagtatac 
tacctctcg ttggaattc tacatgggc cgctctctc 
tccaacaca atgatcaac ctcgggatc caaaattcc 
gtggacgag gctctctat cagctaggt ttggacatc 
gaagagttg gaggaattg gaggaggac gcgggcttg 
ggtaacggc ggcttgggc cgactggcg gcttgtttc 
ctggactcg atggcgact ctagggatg gccgcctat 
ggctacggc atccgctac gagtacggg attttcgcc 
caaaaaatc ataaacggg gagcaacag gaggagccc 
gacgattgg ctccggttc ggcaacccg tgggagaaa 
gcccggcct gagtacatg ctccctgtt aatttttac 
ggcaatgtt gtcgacacc ccgaatggg aaaaaatgg 
gtcaacacc caagtgatt ttcgccctg ccgtatgat 
agtcccatc cccggctat aacaacaac gttgtcaac 
acgctgcgc ttgtggtcg gcgaaatcg cccattgat 
tttaatctc aaattcttc aacgacggt gattatatt 
caagccgtc ctcgaccgt aatctagct gaaaacatc 
tcgcgtgtg ttgtacccc aatgacaat aatttcggg 
gggaaagag ctgcgtctg aaacaggag tatttcatg 
tgtgctgcc accctccaa gacattatc cggcgcttc 
aaagcggcc aagttcggc actcgcgag tacacaaga 
actgacttc gatttgtta cccgataag gttgccatt 
caactgaat gatacgcac ccttctttg gctattccc 
gaattgatg cgcattttg gtcgacatt gagggactc 
ccctggaat aaagcgtgg aatatcacg gtcaaaacg 
tgcgcttat accaaccat accgtacta cctgaagct 
ctagagcgg tggccggtg gaaatgctc caaaatatt 
ttaccgaga catttggag atcatctac caaattaat 
cacttacac cttgaggag gttttgaaa aaatggcct 
ggggacctt gacaggatg cgccgcatg tctctgatt 
gaggaagag ggcgggaaa cgagtgaat atggcccat 
ttgtccatt gtggggtca catgcagtg aacggggtc 
gcaagaatt cactcagag attatcaag agcgatttg 
tttaaggat ttctacgaa atgactccg gaaaagttc 
cagaacaag accaacgga atcaccccc cgccgatgg 
ctccttatg tgtaacccc ggcctgagc gacttgatt 
tcggataaa atcggcgag gactgggtc gtccacctc 
gaccagctc tccaagttg acccaatgg gccaaagac 
cccaacttc caaagggcc gtgatgaag gtcaagcag 
gaaaataag ctaaaactc gcccaactc ctagagaag 
gaatacggc gtgaaaata aaccccggt tcgatgttc 
gacatccac gtcaaacgc atacacgag tacaagcgg 
caactgttg aactgcctc cacattatc acgctttat 
aacagaatc aagcggaac ccttcagcc aaatgcacc 
cccaggacg gtcatgatc gggggaaaa gcggcgccg 
ggttattac accgcgaaa aaaatcatc aaactgatc 
aactgtgtg gccaatgtt gtgaacaac gaccccatg 
gttggggat aagttgaag gtgattttc ctggagaac 
tatcgcgtg tcacttgcc gagaaaata atcccagct 
gcggattta agcgagcag atttcgacc gctgggacg 
gaggcgtca gggaccgga aatatgaag ttccagcta 
aatggggcc ttgaccatt gggacgctg gacggagcg 
aatgtggaa atggccgag gagatgggt cgcgagaat 
atttttatt ttcgggatg acggttgaa gaagtggaa 
gagttgaaa cggaagggt tacaacgcg tacgattac 
tacaacgcg aaccccgaa ctgaaactt gtggttgac 
cagattcag aacgggttc ttcactccg aataatccc 
gatgagttt aaagacctg gcggatatt ttgctgaag 
tacgatcgg ttcttttta ctggctgat tatgatgct 
tatattaag aaacaggag gaagcgagt aatgtctat 
caggatcaa gccaagtgg gttgaaatg gccattcac 
aacatcgca tcgtcgggg aaattctcc agcgatcgg 
accattatt gaatatggg cgggagata tggggcgtt 
gaacctagt tatgagaaa ctcccagcg ccccacgaa 
ccacgagaa ttgaccctt aaggagaac taa
    mRNA sequence
    • >TC008246 RA
      gtgaccttt acactcaaa ttgaactta gtaaagccg 
gcgaatcga caacttctt cattacaat tcggtcgct 
tccaagaaa tcaacatgt ccatccccc aatcggacg 
tcgaaagac gcaaacaaa tcagtgtcc gagggatcg 
cccaagtgg gcgacgtca acgaaatca agaagacct 
tcaacaggc atcttcact acaccctcg tcaaggaca 
ggaatgttg ccactgcaa gagattact acttcgctt 
tggcgcaca cggtgaagg accatttgg tctcgagat 
ggatcagga cgcagcagt attactacg agaaggacc 
ccaagagag tatactacc tctcgttgg aattctaca 
tgggccgct ctctctcca acacaatga tcaacctcg 
ggatccaaa attccgtgg acgaggctc tctatcagc 
taggtttgg acatcgaag agttggagg aattggagg 
aggacgcgg gcttgggta acggcggct tgggccgac 
tggcggctt gtttcctgg actcgatgg cgactctag 
ggatggccg cctatggct acggcatcc gctacgagt 
acgggattt tcgcccaaa aaatcataa acggggagc 
aacaggagg agcccgacg attggctcc ggttcggca 
acccgtggg agaaagccc ggcctgagt acatgctcc 
ctgttaatt tttacggca atgttgtcg acaccccga 
atgggaaaa aatgggtca acacccaag tgattttcg 
ccctgccgt atgatagtc ccatccccg gctataaca 
acaacgttg tcaacacgc tgcgcttgt ggtcggcga 
aatcgccca ttgatttta atctcaaat tcttcaacg 
acggtgatt atattcaag ccgtcctcg accgtaatc 
tagctgaaa acatctcgc gtgtgttgt accccaatg 
acaataatt tcgggggga aagagctgc gtctgaaac 
aggagtatt tcatgtgtg ctgccaccc tccaagaca 
ttatccggc gcttcaaag cggccaagt tcggcactc 
gcgagtaca caagaactg acttcgatt tgttacccg 
ataaggttg ccattcaac tgaatgata cgcaccctt 
ctttggcta ttcccgaat tgatgcgca ttttggtcg 
acattgagg gactcccct ggaataaag cgtggaata 
tcacggtca aaacgtgcg cttatacca accataccg 
tactacctg aagctctag agcggtggc cggtggaaa 
tgctccaaa atattttac cgagacatt tggagatca 
tctaccaaa ttaatcact tacaccttg aggaggttt 
tgaaaaaat ggcctgggg accttgaca ggatgcgcc 
gcatgtctc tgattgagg aagagggcg ggaaacgag 
tgaatatgg cccatttgt ccattgtgg ggtcacatg 
cagtgaacg gggtcgcaa gaattcact cagagatta 
tcaagagcg atttgttta aggatttct acgaaatga 
ctccggaaa agttccaga acaagacca acggaatca 
ccccccgcc gatggctcc ttatgtgta accccggcc 
tgagcgact tgatttcgg ataaaatcg gcgaggact 
gggtcgtcc acctcgacc agctctcca agttgaccc 
aatgggcca aagacccca acttccaaa gggccgtga 
tgaaggtca agcaggaaa ataagctaa aactcgccc 
aactcctag agaaggaat acggcgtga aaataaacc 
ccggttcga tgttcgaca tccacgtca aacgcatac 
acgagtaca agcggcaac tgttgaact gcctccaca 
ttatcacgc tttataaca gaatcaagc ggaaccctt 
cagccaaat gcaccccca ggacggtca tgatcgggg 
gaaaagcgg cgccgggtt attacaccg cgaaaaaaa 
tcatcaaac tgatcaact gtgtggcca atgttgtga 
acaacgacc ccatggttg gggataagt tgaaggtga 
ttttcctgg agaactatc gcgtgtcac ttgccgaga 
aaataatcc cagctgcgg atttaagcg agcagattt 
cgaccgctg ggacggagg cgtcaggga ccggaaata 
tgaagttcc agctaaatg gggccttga ccattggga 
cgctggacg gagcgaatg tggaaatgg ccgaggaga 
tgggtcgcg agaatattt ttattttcg ggatgacgg 
ttgaagaag tggaagagt tgaaacgga agggttaca 
acgcgtacg attactaca acgcgaacc ccgaactga 
aacttgtgg ttgaccaga ttcagaacg ggttcttca 
ctccgaata atcccgatg agtttaaag acctggcgg 
atattttgc tgaagtacg atcggttct ttttactgg 
ctgattatg atgcttata ttaagaaac aggaggaag 
cgagtaatg tctatcagg atcaagcca agtgggttg 
aaatggcca ttcacaaca tcgcatcgt cggggaaat 
tctccagcg atcggacca ttattgaat atgggcggg 
agatatggg gcgttgaac ctagttatg agaaactcc 
cagcgcccc acgaaccac gagaattga cccttaagg 
agaactaaa tttgatatt ttgttataa attttcctg 
tgggaacgt ttgatattg ttactttgt agaaacaaa 
aagagtatt tacatgttg tataaatga aattgttgt 
ttattaaaa cagtgccaa aattgttat tatgagctg 
ttttgcggc gcttctgac actttattg ctctcacat 
tatcttttg ttattatta ttattttta tgtaaaggt 
tagtttgtt taagtattt tgaataaag tcaagtgtg 
tcgtattat ttatggcac tgtgttcaa tatattgtt 
gtttcattt atcttcctc tctttgaat cgttattcc 
aataaatca gtaaaaaat at
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