WormMine: Gene WBGene00006764

• WormBase Gene ID: WBGene00006764
• Gene Name: unc-27
• Sequence Name: ZK721.2
• Brief Description: unc-27 encodes a troponin I isoform; unc-27 is required for coordinated motility and normal muscle morphology; structural analyses indicate that unc-27 is required for proper sarcomeric organization; unc-27/troponin I interacts with the body wall and pharynx types of troponin C; expression studies show that unc-27 is expressed in body wall, vulval and anal muscles.
• Organism: Caenorhabditis elegans
• Automated Description: Enables troponin C binding activity. Involved in locomotion and sarcomere organization. Located in sarcomere. Expressed in body wall musculature; non-striated muscle; and rectal muscle. Human ortholog(s) of this gene implicated in several diseases, including arthrogryposis multiplex congenita; distal arthrogryposis type 2B1; and intrinsic cardiomyopathy (multiple). Is an ortholog of human TNNI1 (troponin I1, slow skeletal type); TNNI2 (troponin I2, fast skeletal type); and TNNI3 (troponin I3, cardiac type).
• Biotype: SO:0001217
• Genetic Position: X :0.395061 ±0.010063
• Length (nt): 1166

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00006764

Genomics

1 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:ZK721.2.1	ZK721.2.1	933	X: 8789456-8790621

Other

1 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:ZK721.2	ZK721.2	729	X: 8789456-8789605

9 RNAi Result

• WBRNAi00089780
• WBRNAi00059692
• WBRNAi00078122
• WBRNAi00078124
• WBRNAi00022149
• WBRNAi00066653
• WBRNAi00089997
• WBRNAi00090156
• WBRNAi00090315

25 Allele

• gk964260
• gk962707
• gk963732
• gk964126
• WBVar02065320
• su142
• su195
• su215
• WBVar01711106
• gk951616
• e155
• tm5540
• WBVar01894622
• gk288170
• gk595378
• gk288169
• gk721844
• gk564835
• bx124
• bx127
• gk288171
• gk623938
• gk564834
• gk447142
• gk383508

1 Chromosome

• WormBase ID: X
• Organism: Caenorhabditis elegans
• Length (nt): 17718942

1 Chromosome Location

• Feature . Primary Identifier: WBGene00006764
• Start: 8789456
• End: 8790621
• Strand: 1

4 Data Sets

• WormBaseAcedbConverter
• GO Annotation data set
• C. elegans genomic annotations (GFF3 Gene)
• Panther orthologue and paralogue predictions

1 Downstream Intergenic Region

• WormBase ID: intergenic_region_chrX_8790622..8792159
• Length (nt): 1538
• Chromosome Location: X: 8790622-8792159
• Organism: Caenorhabditis elegans

225 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts expressed in neuronal cells, by analyzingfluorescence-activated cell sorted (FACS) neurons.	DESeq. False discovry rate (FDR) < 0.1.	WBPaper00048988:neuron_expressed
adult vs dauer larva	Transcripts that showed differential expression in adult vs dauer lava in N2 animals at 20C.	N.A.	WBPaper00050488:adult_vs_dauer_regulated_N2_20C
	TGF- Dauer pathway adult transcriptional targets. Results obtained by comparing the microarray results of the dauer-constitutive mutants daf-7(e1372), daf-7(m62), and daf-1(m40) with dauer-defective mutants daf-3(mgDf90), daf-5(e1386), and daf-7(e1372);daf-3(mgDf90) double mutants at the permissive temperature, 20C, on the first day of adulthood.	SAM	WBPaper00031040:TGF-beta_adult_upregulated
Osmotic stress	Transcripts that showed significantly altered expression with 500 mM salt (NaCl) vs 100 mM salt when food was present	DESeq(version 1.10.1), FDR < 0.05.	WBPaper00050726:OsmoticStress_regulated_Food
	Genes that showed expression levels higher than the corresponding reference sample (embryonic 24hr reference).	A Mann-Whitney U test with an empirical background model and FDR correction for multiple testing was used to detect expressed transcripts (Benjamini and Hochberg 1995). Genes and TARs with an FDR <= 0.05 were reported as expressed above background. Authors detected differentially expressed transcripts using a method based on linear models. Genes and TARs were called differentially expressed if the FDR was <= 0.05 and the fold change (FC) >= 2.0. To more strictly correct for potential false-positives resulting from multiple sample comparisons, authors divided individual FDR estimates by the number of samplesor sample comparisons, respectively. This resulted in an adjusted FDR of 1.3 * 0.0001 for expression above background and of 7.4 * 0.0001 for differential expression. Authors called genes selectively enriched in a given tissue if they met the following requirements: (1) enriched expression in a given tissue (FDR <= 0.05 and FC >= 2.0), (2) fold change versus reference among the upper 40% of the positive FC range observed for this gene across all tissues, and (3) fold-change entropy among the lower 40% of the distribution observed for all genes.	WBPaper00037950:bodywall-muscle_L1-larva_expressed
	Transcripts that showed significantly increased expression glp-1(e2141); TU3401 animals comparing to in TU3401 animals.	Fold change > 2, FDR < 0.01.	WBPaper00065993:glp-1(e2141)_upregulated
Bacteria infection: Enterococcus faecalis OG1RF. Exposure for 16 hours.	Transcripts that showed significantly decreased expression in N2 after animals were exposed to E. faecalis OG1RF for 16 hours comparing to exposure to E. Coli OP50.	Cuffcompare and Cuffdiff	WBPaper00056090:E.faecalis_downregulated_N2
	Proteins interacting with NHR-49-GFP according to co-IP and LC-MS.	N.A.	WBPaper00064071:NHR-49_interacting
	Transcripts expressed in the epithelial tissues surrounding the pharynx that includes the arcade and intestinal valve (AIV) cells, according to PAT-Seq analysis using Pbath-15-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:arcade_intestinal-valve_expressed
	Developmentally modulated gene cluster.	self-organizing map	cgc4386_cluster_1_5
	Transcripts expressed in body muscle, according to PAT-Seq analysis using Pmyo-3-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:body-muscle_expressed
	Transcripts that showed significantly decreased expression at 5-days-post L4 adult N2 hermaphrodites comparing to 1-day-post L4 adult N2 hermaphrodites.	DESeq2, fold change > 2, FDR < 0.05	WBPaper00065835:Day5_vs_Day1_downregulated
	Transcripts expressed in GABAergic neuron, according to PAT-Seq analysis using Punc-47-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:GABAergic-neuron_expressed
	Transcripts that showed significantly decreased expression at 11-days-post L4 adult N2 hermaphrodites comparing to 1-day-post L4 adult N2 hermaphrodites.	DESeq2, fold change > 2, FDR < 0.05	WBPaper00065835:Day11_vs_Day1_downregulated
	Transcripts expressed in hypodermis, according to PAT-Seq analysis using Pdpy-7-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:hypodermis_expressed
	Transcripts expressed in intestine, according to PAT-Seq analysis using Pges-1-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:intestine_expressed
	Transcripts expressed in NMDA neuron, according to PAT-Seq analysis using Pnmr-1-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:NMDA-neuron_expressed
mitochondrial sulfide delivery molecule (mtH2S) AP39	Transcripts that showed significantly increased expression in N2 animals treated with mitochondrial sulfide delivery molecule (mtH2S) AP39 starting from 1-day-post L4 until 11 days post L4.	DESeq2, fold change > 2, FDR < 0.05	WBPaper00065835:mtH2S-AP39-D0-treatment_upregulated_Day11
	Genes up regulated in alg-1(gk214) comparing to in N2.	Differential expression was assessed using an empirical Bayes statistics using the eBayes function.	WBPaper00040823:alg-1(gk214)_upregulated
	Transcripts expressed in pharynx, according to PAT-Seq analysis using Pmyo-2-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:pharynx_expressed
	Transcripts that showed significantly decreased expression in prx-5(RNAi) animals.	Fold change > 2, p-value < 0.05.	WBPaper00060911:prx-5(RNAi)_downregulated_mRNA
	Genes with expression level regulated by genotype (N2 vs CB4856) and age at old adults stage (214 hours at 24 centigrade).	For model 2, authors used 100 permutations to estimate the FDR threshold. Per permutation, genotypes and ages were independently randomly distributed, keeping the among-gene structure intact. Then for each spot (23,232) on the array, model 2 was tested. The obtained P-values were used to estimate a threshold for each of the explanatory factors. Authors also used a genome-wide threshold of -log10 P-value = 2, which resembles an FDR of 0.072 and 0.060 for marker and the interaction age-marker for the developing worms and FDR of 0.050 and 0.065 for marker and age-marker for the aging worms. For the physiological age effect, authors used a log10 P-value = 8 in developing worms (0.012 FDR) and -log10 P-value = 6 (0.032 FDR).	WBPaper00040858:eQTL_age_regulated_aging
	Transcripts expressed in seam cells, according to PAT-Seq analysis using Pgrd-10-GFP-3XFLAG mRNA tagging.	Cufflinks FPKM value >=1.	WBPaper00050990:seam_expressed
	Transcripts that showed significantly decreased expression in day 3 adult hermaphrodite comparing to in L4 larva daf-16(mu86);glp-1(e2141) animals.	Fold change > 2, FDR < 0.05	WBPaper00064088:Day-3-adult_vs_L4_downregulated_daf-16(mu86);glp-1(e2141)
	Transcripts that showed significantly decreased expression in day 3 adult hermaphrodite comparing to in L4 larva glp-1(e2141) animals.	Fold change > 2, FDR < 0.05	WBPaper00064088:Day-3-adult_vs_L4_downregulated_glp-1(e2141)
Bacteria infection: Photorhabdus luminescens	Genes down-regulated in animals infected with Photorhabdus luminescens compared to the E. coli OP50 control after 24h of infection.	MAANOVA and BRB-Array-Tools.	WBPaper00030985:Photorhabdus_luminescens_downregulated
	Transcripts that showed significantly increased expression after 24 hours of induction of human beta Amyloid at young adult stage	A 2-fold change in expression level and a false discovery rate analog of p < 0.05.	WBPaper00064130:Beta-Amyloid_24h_upregulated_mRNA
Bacteria infection: Enterococcus faecalis OG1RF. 16 hours of exposure after L4 larva stage at 25C.	Transcripts that showed significantly decreased expression in N2 animals fed by E. faecalis strain OG1RF for 16 hours after L4 larva stage at 25C.	DESeq2, fold change > 2.	WBPaper00061081:E.faecalis_downregulated_N2
Bacteria infection: Bacillus thuringiensis	Transcripts that showed significantly increased expression in N2 animals infected by bacteria BMB171/Cry5Ba, an acrystalliferous Bt mutant BMB171 transformed with toxin gene cry5Ba on the shuttle vector pHT304, comparing to N2 animals infected by BMB171/pHT304.	N.A.	WBPaper00064229:B.thuringiensis-Cry5Ba_upregulated
Bacteria infection: Bacillus thuringiensis	mRNAs that showed significantly decreased expression after pathogenic bacteria Bacillus thuringiensis infections comparing to non pathogenic BT (BT247(1 to 10 mix) vs BT407 12h), according to RNAseq.	Cuffdiff, ajusted p-value < 0.01.	WBPaper00046497:B.thuringiensis_0.1mix_downregulated_12h

14 Expression Patterns

• Primary Identifier: Expr4742
• Pattern: The anti-CeTNI-2 antibody strongly stained the body wall muscle, and faintly the pharyngeal muscle, vulval muscles and anal muscles.
• Subcellular Localization: At high magnification the anti-CeTNI-2 antibody stained the thin filaments in the I-band regions that also contain actin.

• Primary Identifier: Expr4740
• Remark: Reporter gene fusion type not specified.
• Pattern: The tni-2 and tni-3 genes were also expressed in the same cells of body wall, vulval and anal muscles, but while tni-2 was uniformly expressed in body wall muscles, the tni-3 gene was strongly expressed in the head, vulval and anal muscles. Expression of tni-2::gfp was observed in the vulval and anal muscles in addition to those muscles detected with tni-2::lacZ. This was the result of the inclusion of a longer 5' upstream region of tni-2 that includes the NdE-box enhancer for vulval expression.

• Primary Identifier: Expr4741
• Remark: Reporter gene fusion type not specified.
• Pattern: The tni-2 and tni-3 genes were also expressed in the same cells of body wall, vulval and anal muscles, but while tni-2 was uniformly expressed in body wall muscles, the tni-3 gene was strongly expressed in the head, vulval and anal muscles. Expression of tni-2::gfp was observed in the vulval and anal muscles in addition to those muscles detected with tni-2::lacZ. This was the result of the inclusion of a longer 5' upstream region of tni-2 that includes the NdE-box enhancer for vulval expression.

• Primary Identifier: Expr4739
• Remark: Reporter gene fusion type not specified.
• Pattern: The tni-1 gene was weakly expressed in the same cells as tni-2.

• Primary Identifier: Expr4736
• Remark: Reporter gene fusion type not specified.
• Pattern: Expression began at the comma stage and continued from the L1 to adult stages in body wall muscles. The tni-2::lacZ construct gave strong expression in all the body wall muscles.

• Primary Identifier: Expr2035996
• Pattern: Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans).

• Primary Identifier: Expr4559
• Pattern: In the adult, unc-27gfp (bxEx97), a rescuing reporter, is expressed exclusively in body-wall muscles, inner and outer longitudinal muscles, anal depressor, sphincter, and male-specific diagonal muscles. GFP expression is first detected in the 3-fold embryo in embryonic body-wall muscles and is maintained after hatching into the adult stage.

• Primary Identifier: Expr1163107
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

• Primary Identifier: Expr1032837
• Pattern: Tiling arrays expression graphs

• Primary Identifier: Expr2837
• Pattern: In wild-type worms, ZK721.2/unc-27 is transcriptionally active in the body-wall musculature, with weak expression in late-stage embryos and strong expression during the larval and adult stages, when it appears to be the major body-wall isoform. Transcripts were also detected in the diagonal sex muscles of the male.F42E11.4 is the major body-wall isoform during embryogenesis, but its body-wall expression wanes during the larval stages.

• Primary Identifier: Expr10614
• Pattern: The expression of the pI1U2061R tni-1::rfp reporter was only observed in body-wall muscles as aggregated signals, compared with the tni-2::gfp expression. The pI2U2624 tni-2::gfp reporter was expressed in body-wall muscles including head region, vulval and rectum muscles. The pI3U3698R tni-3::rfp reporter was expressed in body-wall muscles including head region, vulval and rectum muscles.

• Primary Identifier: Expr12660
• Pattern: Troponin I (TNI) is expressed in the C. elegans somatic gonad and colocalizes with non-striated actin networks. TNI is expressed in the myoepithelial sheath and is localized to nonstriated actin networks. In dissected gonads from wild-type worms, TNI was specifically expressed in the myoepithelial sheath that surrounds oocytes in the proximal gonad but not in the spermatheca, oocytes or distal arm containing non-myoepithelial sheath, germline cells and distal-tip cell. TNI colocalized to non-striated networks of actin filaments in the myoepithelial sheath.

• Primary Identifier: Expr1022908
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/levin2012

• Primary Identifier: Expr2017860
• Pattern: Single cell embryonic expression. Only cell types with an expression fraction of greater 0.2 of the maximum expressed fraction are labeled (Full data can be downloaded from http://caltech.wormbase.org/pub/wormbase/datasets-published/packer2019/). The colors represent the broad cell class to which the cell type has been assigned. The size of the point is proportional to the log2 of the numbers of cells in the dataset of that cell type. Interactive visualizations are available as a web app (https://cello.shinyapps.io/celegans/) and can also be installed as an R package (https://github.com/qinzhu/VisCello.celegans).

9 GO Annotation

20 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00006764
• Start: 8789456
• End: 8790621
• Strand: 1

9 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 1166

1 Sequence Ontology Term