Status
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Gene information
General information
TC013799 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_007420.3: 3832893..3868699
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
    		TC013799
    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_02208

    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: 50.0% (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: 3 (9 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): less than 30%

    affected eggs/embryos/larvae - Penetrance (percentage of animals/eggs on slide): less than 30%
    remarks: muscle pattern potentially obscured by segmentation defect,
    Analysis of larval stage 1 cuticle
    number of eggs/embryos/larvae on slide: < 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: 44.44% (includes death as larva, prepupa, pupa)
    Lethalities 22 days after larval injection: 44.44% (includes death as larva, prepupa, pupa, adult)

    larva lethality - Number of animals showing the phenotype: 4 (11 dpi)
    Days post injection

    RNAi sequence
    Primers
    Left: Right:
    Protein sequence
    • >TC013799 RA
      MTSKGSKCR VLLHQCLAI IVRKEGCRG DPGDFWMYE 
NGYLLFQGL LSSNSLCWW NTGLNGATK TLTYHGYIS 
PGAILVGSE PCAIDIVKN AWARRVLQP PPGYQIVAL 
EDIECDGSP VAQTQWTPL PEAVCAVIL RLSRQGRPA 
GIETIREAL IMAFPHVSP PSEQALYDT LVQLTTERK 
LYHTSNGYF IVTPERRRS RSASRGRKR VEDHDHEPL 
SGKTMLMST EEALVMVHG DMATIRDGD VTHQLIQTN 
LADVICGGN SSDKILYPR STKHRASSL SVPRSPDRR 
GSFRLWRSS RRLRRSAST RTIAKHYVD NTSSSTENS 
APSTPSPKK ESLLTRLFK KTKRSQCQI SSFSAQFPP 
TEWFNSKAV HLHSIGTQT STTDNEVAS ITSYLENCE 
IKPTRSATL PRRRCRQYP DLPYPPYPL SRENSPVTR 
KNPYMPCTL PRNKQKSRD SSRKTSRSS SRQTEEKPE 
SVKTSQKLE VPDNSGPSS IESHKSSTK TESSFNSGP 
SSLESHKTV INTKEKAKK TTNNRTCIP QSNSFTLQV 
TTNQGGKLN NKPNATTTT TINGEGGSS TKIFVQNSP 
VRSVITFEN GQCDDRNPN LVIINDTEP REQIPTKNT 
NQSKETTLN NSRDLLPNG ESLEQKNNS RKLSLQLPN 
NLIKNVSTH KFVSNSNPD SPIIGHEVP KGGYNSTPP 
SPTKSTDAL SMSSIGNIY TKNEMGSLA SFDSCKKLE 
KNMLGSEPN ISFKDNRDQ QFPSLNDLS FNFTSLAAQ 
KILKGVGLN SVDTLVELN MTANLDKQN NCDVVHTDF 
GMF
    CDS sequence
    • >TC013799 RA
      atgacctcg aagggctcc aagtgcaga gtcctcttg 
caccagtgc ctggccatc atcgtcagg aaggagggc 
tgtcggggc gacccgggc gacttctgg atgtacgaa 
aatggatat ctgctcttc cagggtttg ctatcatcg 
aacagcctt tgctggtgg aacaccggt ctaaacgga 
gccacgaag acgctaacc tatcacggc tacatcagc 
cccggagcc atcctcgtc ggttctgaa ccctgtgct 
atcgacatc gtcaaaaac gcatgggct agacgcgtc 
ctccagcct cctccaggc taccagatc gtggctttg 
gaggatatc gagtgtgat ggtagtccg gttgcccag 
acccaatgg acgccgctt ccggaggcc gtttgtgcc 
gttatcctc cggctgtcg cgccaaggg cggcctgct 
gggatcgag accatcagg gaggccctc atcatggcc 
ttcccccac gtctcgccc ccaagtgag caggccttg 
tacgacact ctggtgcaa ctgaccacc gagaggaag 
ttgtaccat acctccaat gggtacttt atcgtcact 
ccagaacgg aggaggtcg cggagcgcg tcacgtggc 
cggaagcga gtggaggat cacgaccac gaaccactt 
tccggtaaa acgatgctc atgagtaca gaagaagcg 
cttgttatg gttcatgga gacatggcc actatacga 
gacggtgat gttacgcac caactcatc caaaccaac 
ttggccgac gttatatgt ggagggaac tcgagcgat 
aagattctc tacccgaga agtaccaaa cacagggcc 
tcctcctta tcagtacca cgaagtccg gaccggagg 
ggctccttc aggctgtgg aggtccagc cggaggctg 
aggaggtcg gcctccacg aggaccata gccaaacac 
tacgtggac aacacgagt agtagtacc gaaaattca 
gcgccttca acgccaagt ccgaaaaaa gagtcgctt 
ttgacgcgc ctcttcaag aaaaccaaa cgctcccag 
tgccaaatc agctcattc agtgctcaa ttcccgcca 
actgagtgg ttcaactcc aaagccgtc catttacac 
agcatcggg acccaaacc tcgaccaca gataatgag 
gttgcctcc atcacatct tatttggaa aactgcgag 
atcaaacca acacgttcg gccaccctc ccccgccgc 
cgctgccgc caatacccc gacctaccc taccccccg 
tacccccta tcccgtgaa aattccccc gtcacccgc 
aaaaacccc tacatgcct tgcaccctc ccgcgcaac 
aagcagaaa agccgcgac tcctcccgg aagacaagc 
cggagcagt tcccggcaa accgaggag aaacccgaa 
agtgtgaaa actagtcaa aaactggaa gttcccgac 
aacagcgga ccctcgagc atcgagtcg cataagagc 
agcaccaag acggagagc tcgttcaac agcgggccc 
tccagtctc gagtcgcac aaaaccgtc atcaacacc 
aaggagaag gccaaaaag acaaccaac aaccggacc 
tgcatcccg caaagcaac tcgttcacg ctgcaagtg 
acgaccaat cagggcgga aagctgaac aacaagccc 
aacgccacc accaccacg accatcaac ggggaaggc 
ggcagcagt acgaagatc ttcgtgcag aattcgccg 
gttcgctcg gttataacc ttcgagaac gggcagtgc 
gacgaccgc aaccccaac ctggtcata atcaacgac 
acggagccg cgggagcaa atcccgacg aaaaacacg 
aaccagtcc aaagaaacg actctgaac aactcgaga 
gacctgctc ccgaacggc gagagcctc gagcagaag 
aacaacagt cgcaaatta tcgcttcaa cttcccaat 
aaccttata aaaaacgtc tcgacgcac aagttcgtc 
tccaattcc aacccagac tcgcccatc atcgggcac 
gaagtgcct aaagggggc tacaacagc acccctcct 
agtcccacc aagagcacc gacgccctg tcgatgtcc 
tccattggg aacatttac accaagaac gaaatgggt 
tcgctggcg agtttcgat tcgtgcaaa aagctcgag 
aaaaatatg ctgggttct gagcccaat atcagtttt 
aaggacaat cgcgaccaa caatttccc agtcttaat 
gacctttcg tttaatttt acgagtttg gcggcacag 
aaaatcctc aagggagtg ggtctaaat agtgtcgat 
acgttggtt gagctgaat atgacggcc aatttggat 
aaacagaac aactgtgat gtggttcat acggatttt 
gggatgttt tag
    mRNA sequence
    • >TC013799 RA
      tgtaacaat ttaaagagg caataaaaa tgcctcagt 
tcaaaattt atcgaatgt taaaccatc aatttatca 
tttaattgt gtcaaattg gagttaaaa gcgcccatt 
tatctattt gaaaacttt cgaaaatct gtcaatctt 
gatacaaat ctatcgaat tagtcgagt tgatttctt 
tcacccacg acctcatcc attgttgga tggcatctg 
tggtcccaa cccaggaac tgctcttta gctatcact 
ttcatcatc ccctttttc ctcataggt cacccatcg 
ccttcgtcg aaaggtcat tgacgcggt gcggtgcgt 
aaaaatcgc aaaatgata accggtgtc atgcaaggt 
tagtgctcg ttgcccata ataggccta aacgaggct 
gcatcatgt ccaaaagtt gcccaaaaa acctcccat 
tcaacaacc accggagca acaaatagc caaaccggt 
tacctgctg catagcatt ctctcaaaa attatacag 
attccaatg agcgctggc tacgcaagt ctccgcgac 
taccacacc gatttcttt agtcttggt tctactttc 
aaggatgta acaggtgta caactctgt gctagatct 
gtttgcagt gtttgggtt caagtgatc gattgctaa 
aatgattgc tagttcgtg aaacatgac ctcgaaggg 
ctccaagtg cagagtcct cttgcacca gtgcctggc 
catcatcgt caggaagga gggctgtcg gggcgaccc 
gggcgactt ctggatgta cgaaaatgg atatctgct 
cttccaggg tttgctatc atcgaacag cctttgctg 
gtggaacac cggtctaaa cggagccac gaagacgct 
aacctatca cggctacat cagccccgg agccatcct 
cgtcggttc tgaaccctg tgctatcga catcgtcaa 
aaacgcatg ggctagacg cgtcctcca gcctcctcc 
aggctacca gatcgtggc tttggagga tatcgagtg 
tgatggtag tccggttgc ccagaccca atggacgcc 
gcttccgga ggccgtttg tgccgttat cctccggct 
gtcgcgcca agggcggcc tgctgggat cgagaccat 
cagggaggc cctcatcat ggccttccc ccacgtctc 
gcccccaag tgagcaggc cttgtacga cactctggt 
gcaactgac caccgagag gaagttgta ccatacctc 
caatgggta ctttatcgt cactccaga acggaggag 
gtcgcggag cgcgtcacg tggccggaa gcgagtgga 
ggatcacga ccacgaacc actttccgg taaaacgat 
gctcatgag tacagaaga agcgcttgt tatggttca 
tggagacat ggccactat acgagacgg tgatgttac 
gcaccaact catccaaac caacttggc cgacgttat 
atgtggagg gaactcgag cgataagat tctctaccc 
gagaagtac caaacacag ggcctcctc cttatcagt 
accacgaag tccggaccg gaggggctc cttcaggct 
gtggaggtc cagccggag gctgaggag gtcggcctc 
cacgaggac catagccaa acactacgt ggacaacac 
gagtagtag taccgaaaa ttcagcgcc ttcaacgcc 
aagtccgaa aaaagagtc gcttttgac gcgcctctt 
caagaaaac caaacgctc ccagtgcca aatcagctc 
attcagtgc tcaattccc gccaactga gtggttcaa 
ctccaaagc cgtccattt acacagcat cgggaccca 
aacctcgac cacagataa tgaggttgc ctccatcac 
atcttattt ggaaaactg cgagatcaa accaacacg 
ttcggccac cctcccccg ccgccgctg ccgccaata 
ccccgacct accctaccc cccgtaccc cctatcccg 
tgaaaattc ccccgtcac ccgcaaaaa cccctacat 
gccttgcac cctcccgcg caacaagca gaaaagccg 
cgactcctc ccggaagac aagccggag cagttcccg 
gcaaaccga ggagaaacc cgaaagtgt gaaaactag 
tcaaaaact ggaagttcc cgacaacag cggaccctc 
gagcatcga gtcgcataa gagcagcac caagacgga 
gagctcgtt caacagcgg gccctccag tctcgagtc 
gcacaaaac cgtcatcaa caccaagga gaaggccaa 
aaagacaac caacaaccg gacctgcat cccgcaaag 
caactcgtt cacgctgca agtgacgac caatcaggg 
cggaaagct gaacaacaa gcccaacgc caccaccac 
cacgaccat caacgggga aggcggcag cagtacgaa 
gatcttcgt gcagaattc gccggttcg ctcggttat 
aaccttcga gaacgggca gtgcgacga ccgcaaccc 
caacctggt cataatcaa cgacacgga gccgcggga 
gcaaatccc gacgaaaaa cacgaacca gtccaaaga 
aacgactct gaacaactc gagagacct gctcccgaa 
cggcgagag cctcgagca gaagaacaa cagtcgcaa 
attatcgct tcaacttcc caataacct tataaaaaa 
cgtctcgac gcacaagtt cgtctccaa ttccaaccc 
agactcgcc catcatcgg gcacgaagt gcctaaagg 
gggctacaa cagcacccc tcctagtcc caccaagag 
caccgacgc cctgtcgat gtcctccat tgggaacat 
ttacaccaa gaacgaaat gggttcgct ggcgagttt 
cgattcgtg caaaaagct cgagaaaaa tatgctggg 
ttctgagcc caatatcag ttttaagga caatcgcga 
ccaacaatt tcccagtct taatgacct ttcgtttaa 
ttttacgag tttggcggc acagaaaat cctcaaggg 
agtgggtct aaatagtgt cgatacgtt ggttgagct 
gaatatgac ggccaattt ggataaaca gaacaactg 
tgatgtggt tcatacgga ttttgggat gttttagat 
ggtcttttt gccggcttt ggacaaagt cggttttaa 
aggattgta acatatgta tttttagcg agttaggtc 
agtcaccgg ctgaacatg tatttaata ttttatata 
cgattttat gtaattatg cagaataaa ctattatat 
ttaca

    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