Status
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Gene information
General information
TC004713 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_007416.3: 847728..856099
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
    		TC004713
    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
    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_03821

    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)

    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 larval musculature mostlynot present - Penetrance (percentage of animals/eggs on slide): more than 80%

    Comment: It seems that only one specific muscle in the head is still present.
    affected eggs/embryos/larvae total percentage of affected eggs/embryos/larvae on slide - Penetrance (percentage of animals/eggs on slide): more than 80%
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: > 50
     abdomen circumference 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): 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: 100.0% (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: 10 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC004713 RA
      MILNIWYLF AFATCTKAL ISNPHTSSN QTEDNAPYF 
TKRNLPVLV SGRQGQSSI LKCGAKGTP KPQISWYKG 
TNLITQSNK KYHLIHQNL KILNLQSED NGLYKCLVC 
NEVSCIHHN YNLVVEPFY AKSFANNDL EEKTTSDSF 
RTQKVKLHF RRPNKMPKT LSVRINRRV ILNCRTFGT 
PSPTISWYK NGEALAKSR RKIVQSRWS MLVKNFNRG 
DSGNYTCVA CNSMDCINH TFTLSTKEL CGSNAIYSK 
KSAVVSGSN VTLACRAGA AWVRTYPNG TNQVIKNNT 
RCLNIDNIS QEDEGWYRC QRVSWYLTV IDSEEEENT 
VPASSLRKK RETEKKAPY WVNPKKMSK MQVKPAGNM 
VNLKCKAGG NPTPNITWY KDDKPPNRQ LGDIRYQHW 
SLTLEDLVT GDTGDYTCV VCNELGCIN FTYRVDVIE 
RYHNKPVLT HPLENTTAV VGTSINLTC TFLADLNPF 
IQWTREYPN KSAVVVLQK SGDTDSPEV YEIKNVTYQ 
DEGWYVCIA ANSLGQTAS KGYLKVVDS LEVEPKNNY 
IVYTALIIF FTIIAFGTL VLLFFRKLK IEKQKKMID 
IETVRAAVV TQWTKKVII EKIQNTNED VSEPLLMPV 
VKIEKQKSQ NNNSGDGMI SEYELPMDS DWEIPRSML 
CLGKSLGEG AFGKVVKAE AVGLLKPGA SSIVAVKML 
KEGHTDNEM MDLVSEMEM MKMIGKHNN IINLLGCCT 
QGGPLYVVV EYAPYGNLR DFLRQHRPS SGYEPAIGL 
EEKEKKTLT QKDLVSFAY QVARGMEYL ASRRCIHRD 
LAARNVLVS DDYFLKIAD FGLARDIHC NDYYRKTTD 
GRLPVKWMA PEALFHRVY TTQSDVWSY GILLWEIMT 
LGGTPYPSV PSVEKLFQL LRNGHRMEK PPCCSLEIY 
MLMRECWSY KPNERPTFS QLVEDLDRI LTITANEEY 
LDLGLPQLD TPPSSQESS GDEEDFPFD SLTSQCLNN 
VQLS
    CDS sequence
    • >TC004713 RA
      atgatcctc aatatttgg tacctcttc gcctttgcg 
acttgcacc aaggcactg atatcaaac ccacacaca 
tcttcaaat caaaccgaa gacaatgcg ccatatttt 
acaaaacgc aacttacct gttctagta tcaggaagg 
caaggccaa tctagtata cttaaatgt ggggctaaa 
ggtacccca aaaccccag atttcatgg tacaaaggc 
accaacctc atcacccaa agcaataaa aagtatcac 
ctcattcac caaaacctt aaaatccta aacctccaa 
tctgaagac aacggtttg tacaaatgt cttgtttgt 
aacgaagtc agctgcatc catcacaat tacaacctc 
gttgttgaa ccattttat gcaaaaagt tttgctaac 
aatgatctc gaagaaaaa accacttcc gattccttt 
cggacccaa aaagtgaag ctacacttt cgtagaccg 
aataaaatg ccgaaaaca ttatcagta cggatcaat 
agacgagta attttaaat tgtagaacg tttggaact 
cctagtcct actatatcc tggtacaaa aatggcgaa 
gcattggcg aaaagtcgg agaaaaatt gttcaaagt 
cggtggtca atgctcgta aaaaacttc aatcgagga 
gattcagga aattatact tgtgtggct tgcaattct 
atggattgt atcaatcac acgtttact ttatcgacg 
aaggaactt tgtggttcc aatgctatt tattcaaaa 
aaatccgct gtagtttcg ggttctaat gtaactcta 
gcctgcaga gcgggggcg gcttgggta aggacgtac 
ccaaatggc acaaatcag gtcatcaaa aataatacc 
aggtgcctc aatattgac aatatatct caggaagac 
gaagggtgg tacaggtgt caaagagtt agctggtat 
ttaacggtt atagatagt gaagaggag gagaacact 
gtgcctgca tcctctctt cggaaaaaa cgtgaaacg 
gagaagaaa gccccctat tgggtgaac ccgaaaaaa 
atgtccaaa atgcaggtg aaaccagct ggtaacatg 
gtgaacctc aaatgcaaa gctgggggt aacccaact 
cccaacatc acttggtac aaagacgac aagcctcca 
aaccgccag ttgggcgat attcggtac caacactgg 
agcttgact ttggaggac ctcgtcact ggtgacacc 
ggtgactac acttgtgta gtgtgcaac gaactgggt 
tgtattaat tttacgtac agagttgac gttatcgaa 
cgctatcac aacaaacct gttcttaca catccatta 
gaaaacacg actgcggtt gtgggcaca agtataaat 
ctcacatgt accttcctt gctgatcta aaccctttt 
attcagtgg actagggaa tacccaaat aagagtgcg 
gttgtggtg ctacagaaa agtggcgac actgacagc 
cctgaagtg tacgaaata aaaaatgta acttatcaa 
gacgagggc tggtacgta tgcattgca gctaatagc 
ttaggccaa acggcctca aaaggatat ctaaaagtt 
gtagatagc ttagaagtt gaaccaaaa aataattac 
attgtctac actgctctg atcattttc tttacaata 
attgccttt ggaaccctg gtcctacta ttctttaga 
aagttgaag attgaaaag cagaaaaaa atgattgat 
atcgaaaca gttcgtgca gctgttgta actcaatgg 
actaagaaa gttattatt gaaaaaata caaaacacc 
aacgaggat gtctccgaa cctttgtta atgccggtc 
gttaaaata gaaaaacaa aaaagtcaa aacaacaat 
tccggagac ggaatgatc tctgagtat gagctacca 
atggactcc gactgggaa attccaaga tcaatgctt 
tgtctcggg aaaagttta ggcgaggga gcttttggt 
aaagtagtc aaagctgaa gctgtaggt ttgctcaaa 
cctggggca tcaagtata gtcgcggta aaaatgttg 
aaagagggt cacactgac aacgaaatg atggacttg 
gtgtcggaa atggaaatg atgaaaatg ataggcaaa 
cacaacaat attattaat ttgctgggc tgttgtacc 
cagggtggg cccttatac gttgtggta gaatacgct 
ccttatggc aacttgagg gattttctt cgccaacac 
agaccatca tctggttac gaaccagcg atcggactt 
gaagaaaaa gagaagaaa accttgact cagaaagat 
ttggtgtct tttgcctat caggtggca cgaggaatg 
gaatatttg gcatcgcga cgatgtatt catcgagat 
ttagctgcg cggaacgtt ttagtgagc gatgactat 
tttttgaaa attgctgac tttggcctg gcccgggac 
atccactgt aacgattat tacagaaaa acaaccgat 
ggtcgactt ccggttaaa tggatggcg cccgaggcc 
cttttccac agggtgtac accacccag tcagacgtt 
tggtcgtac ggcatcctg ctgtgggag ataatgaca 
cttggaggt actccatat ccgtctgtc ccgagtgtc 
gaaaaactc ttccagctg ttacgtaat gggcaccgt 
atggaaaag ccgccctgt tgttcgttg gaaatttac 
atgttgatg cgcgaatgt tggagctac aaaccgaac 
gaaaggccc actttttcg caactggtg gaggacctt 
gacagaatt ttgacaatc acagcgaat gaagagtac 
ctagatttg gggctcccc caattggac actcctcca 
tcgagccag gaatcgagc ggcgacgag gaggatttc 
cctttcgat agtctaact agtcagtgt ctcaataac 
gtgcagctt tcgtga
    mRNA sequence
    • >TC004713 RA
      tggtagaaa tagacttgt agttaagaa cagaacaga 
agtcgcatc tcgcccacg ccagacgtc gtctgcgtc 
cgtagtact cctcagaga gtgccagag taaagtcag 
agagtaaat cgcagccta ttgtccgcg cgtgtcaac 
ctttatttt cattcataa acccgcatg tttcgaaaa 
tgcggtcct tccgaggga ttaaacccg gccagtttt 
gagcggagc tagaggagt gcggagtga tcttggacc 
gaaatagaa gtgattttg tgcactctg gacgatttg 
cgaccgatt ctgatggag acatcatga tcctcaata 
tttggtacc tcttcgcct ttgcgactt gcaccaagg 
cactgatat caaacccac acacatctt caaatcaaa 
ccgaagaca atgcgccat attttacaa aacgcaact 
tacctgttc tagtatcag gaaggcaag gccaatcta 
gtatactta aatgtgggg ctaaaggta ccccaaaac 
cccagattt catggtaca aaggcacca acctcatca 
cccaaagca ataaaaagt atcacctca ttcaccaaa 
accttaaaa tcctaaacc tccaatctg aagacaacg 
gtttgtaca aatgtcttg tttgtaacg aagtcagct 
gcatccatc acaattaca acctcgttg ttgaaccat 
tttatgcaa aaagttttg ctaacaatg atctcgaag 
aaaaaacca cttccgatt cctttcgga cccaaaaag 
tgaagctac actttcgta gaccgaata aaatgccga 
aaacattat cagtacgga tcaatagac gagtaattt 
taaattgta gaacgtttg gaactccta gtcctacta 
tatcctggt acaaaaatg gcgaagcat tggcgaaaa 
gtcggagaa aaattgttc aaagtcggt ggtcaatgc 
tcgtaaaaa acttcaatc gaggagatt caggaaatt 
atacttgtg tggcttgca attctatgg attgtatca 
atcacacgt ttactttat cgacgaagg aactttgtg 
gttccaatg ctatttatt caaaaaaat ccgctgtag 
tttcgggtt ctaatgtaa ctctagcct gcagagcgg 
gggcggctt gggtaagga cgtacccaa atggcacaa 
atcaggtca tcaaaaata ataccaggt gcctcaata 
ttgacaata tatctcagg aagacgaag ggtggtaca 
ggtgtcaaa gagttagct ggtatttaa cggttatag 
atagtgaag aggaggaga acactgtgc ctgcatcct 
ctcttcgga aaaaacgtg aaacggaga agaaagccc 
cctattggg tgaacccga aaaaaatgt ccaaaatgc 
aggtgaaac cagctggta acatggtga acctcaaat 
gcaaagctg ggggtaacc caactccca acatcactt 
ggtacaaag acgacaagc ctccaaacc gccagttgg 
gcgatattc ggtaccaac actggagct tgactttgg 
aggacctcg tcactggtg acaccggtg actacactt 
gtgtagtgt gcaacgaac tgggttgta ttaatttta 
cgtacagag ttgacgtta tcgaacgct atcacaaca 
aacctgttc ttacacatc cattagaaa acacgactg 
cggttgtgg gcacaagta taaatctca catgtacct 
tccttgctg atctaaacc cttttattc agtggacta 
gggaatacc caaataaga gtgcggttg tggtgctac 
agaaaagtg gcgacactg acagccctg aagtgtacg 
aaataaaaa atgtaactt atcaagacg agggctggt 
acgtatgca ttgcagcta atagcttag gccaaacgg 
cctcaaaag gatatctaa aagttgtag atagcttag 
aagttgaac caaaaaata attacattg tctacactg 
ctctgatca ttttcttta caataattg cctttggaa 
ccctggtcc tactattct ttagaaagt tgaagattg 
aaaagcaga aaaaaatga ttgatatcg aaacagttc 
gtgcagctg ttgtaactc aatggacta agaaagtta 
ttattgaaa aaatacaaa acaccaacg aggatgtct 
ccgaacctt tgttaatgc cggtcgtta aaatagaaa 
aacaaaaaa gtcaaaaca acaattccg gagacggaa 
tgatctctg agtatgagc taccaatgg actccgact 
gggaaattc caagatcaa tgctttgtc tcgggaaaa 
gtttaggcg agggagctt ttggtaaag tagtcaaag 
ctgaagctg taggtttgc tcaaacctg gggcatcaa 
gtatagtcg cggtaaaaa tgttgaaag agggtcaca 
ctgacaacg aaatgatgg acttggtgt cggaaatgg 
aaatgatga aaatgatag gcaaacaca acaatatta 
ttaatttgc tgggctgtt gtacccagg gtgggccct 
tatacgttg tggtagaat acgctcctt atggcaact 
tgagggatt ttcttcgcc aacacagac catcatctg 
gttacgaac cagcgatcg gacttgaag aaaaagaga 
agaaaacct tgactcaga aagatttgg tgtcttttg 
cctatcagg tggcacgag gaatggaat atttggcat 
cgcgacgat gtattcatc gagatttag ctgcgcgga 
acgttttag tgagcgatg actattttt tgaaaattg 
ctgactttg gcctggccc gggacatcc actgtaacg 
attattaca gaaaaacaa ccgatggtc gacttccgg 
ttaaatgga tggcgcccg aggcccttt tccacaggg 
tgtacacca cccagtcag acgtttggt cgtacggca 
tcctgctgt gggagataa tgacacttg gaggtactc 
catatccgt ctgtcccga gtgtcgaaa aactcttcc 
agctgttac gtaatgggc accgtatgg aaaagccgc 
cctgttgtt cgttggaaa tttacatgt tgatgcgcg 
aatgttgga gctacaaac cgaacgaaa ggcccactt 
tttcgcaac tggtggagg accttgaca gaattttga 
caatcacag cgaatgaag agtacctag atttggggc 
tcccccaat tggacactc ctccatcga gccaggaat 
cgagcggcg acgaggagg atttccctt tcgatagtc 
taactagtc agtgtctca ataacgtgc agctttcgt 
gattgactg attccaaat tcggactcg ttttttact 
aaatgtgtt actattttg taatctaat cggaggtaa 
atgttacac atgtgtatt tcatggttt tcagttcac 
gttttatta ataccacca aagaaaatg caattttag 
tgttaagtg gttacgtta aggttaaga ctgtaaatt 
tatgtatta ataaaattt cgtaactca c

    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