WormMine: Gene WBGene00002024

• WormBase Gene ID: WBGene00002024
• Gene Name: hsp-43
• Sequence Name: C14F11.5
• Brief Description: hsp-43 encodes a member of the hsp20 family.
• Organism: Caenorhabditis elegans
• Automated Description: Predicted to enable unfolded protein binding activity. Predicted to be involved in protein refolding and response to heat. Predicted to be located in cytoplasm and nucleus. Expressed in several structures, including copulatory spicule; hermaphrodite gonad; pharyngeal-intestinal valve; rectal valve cell; and vulva.
• Biotype: SO:0001217
• Genetic Position: X :-3.27567 ±0.042036
• Length (nt): 2393

1 Organism

• Name: Caenorhabditis elegans
• Taxon Id: 6239

1 Synonyms

• Value: WBGene00002024

Genomics

2 Transcripts

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
Transcript:C14F11.5b.1	C14F11.5b.1	1385	X: 6233151-6235543
Transcript:C14F11.5a.1	C14F11.5a.1	1307	X: 6233152-6235541

Other

2 CDSs

WormMine ID	Sequence Name	Length (nt)	Chromosome Location
CDS:C14F11.5b	C14F11.5b	1182	X: 6233327-6233448
CDS:C14F11.5a	C14F11.5a	1107	X: 6233327-6233448

8 RNAi Result

• WBRNAi00091467
• WBRNAi00001043
• WBRNAi00040559
• WBRNAi00106388
• WBRNAi00010764
• WBRNAi00076126
• WBRNAi00033481
• WBRNAi00091468

46 Allele

• gk964260
• WBVar01926926
• gk460133
• gk729243
• gk368630
• gk336813
• gk583279
• gk326449
• gk808824
• gk539793
• gk963921
• gk801021
• gk803436
• gk899701
• gk551837
• gk587706
• gk373398
• gk630008
• gk340806
• gk454579
• gk551838
• gk391255
• gk602382
• gk721825
• tm359
• WBVar00032891
• WBVar01881061
• WBVar01469264
• tm12233
• WBVar01881057

1 Chromosome

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

1 Chromosome Location

• Feature . Primary Identifier: WBGene00002024
• Start: 6233151
• End: 6235543
• 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_6233049..6233150
• Length (nt): 102
• Chromosome Location: X: 6233049-6233150
• Organism: Caenorhabditis elegans

247 Expression Clusters

Regulated By Treatment	Description	Algorithm	Primary Identifier
	Transcripts of coding genes that showed significantly decreased expression in muscle.	DESeq2 (version 1.24.0). Transcripts with a false-discovery rate adjusted p-value less than 0.05 were considered significantly differentially expressed.	WBPaper00062325:muscle_depleted_coding-RNA
	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
Bacteria infection: Enterococcus faecalis	Genes with increased expression after 24 hours of infection by E.faecalis Fold changes shown are pathogen vs OP50.	For RNA-seq and tiling arrays, log2 fold changes between gene expression values of infected versus uninfected nematodes were calculated. For log2 fold changes > 0.00001 the values > 81.25th percentile were defined as up-regulated and for log2 fold changes < -0.00001 the values < 18.75th percentile were defined as down-regulated.	WBPaper00038438:E.faecalis_24hr_upregulated_TilingArray
Fungi infection: Myzocytiopsis humicola	Transcripts that showed significantly altered expression 12 hours after animals were infected by M. humicola.	Differentially expressed genes as determined by Kallisto and Sleuth (pval<0.01, qval<0.1).	WBPaper00060871:M.humicola-infection_12h_regulated
	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
	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 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 that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva daf-16(mu86);glp-1(e2141) animals.	Fold change > 2, FDR < 0.05	WBPaper00064088:Day-1-adult_vs_L4_upregulated_daf-16(mu86);glp-1(e2141)
	Transcripts that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva fem-3(q20) animals.	Fold change > 2, FDR < 0.05	WBPaper00064088:Day-1-adult_vs_L4_upregulated_fem-3(q20)
	Transcripts that showed significantly increased expression in day 1 adult hermaphrodite comparing to in L4 larva glp-1(e2141) animals.	Fold change > 2, FDR < 0.05	WBPaper00064088:Day-1-adult_vs_L4_upregulated_glp-1(e2141)
	Transcripts that showed significantly increased expression in day 3 adult hermaphrodite comparing to in L4 larva fem-3(q20) animals.	Fold change > 2, FDR < 0.05	WBPaper00064088:Day-3-adult_vs_L4_upregulated_fem-3(q20)
	Transcripts that showed significantly increased expression in rrf-3(pk1426) comparing to in N2 at embryo stage.	DESeq2v 1.18.1, fold change > 1.5, adjusted p-value < 0.01.	WBPaper00056169:rrf-3(pk1426)_upregulated_embryo
	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: 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
	Transcripts that showed significantly increased expression in sin-3(tm1276) comparing to in N2.	DESeq2, fold change > 2, p-value < 0.01.	WBPaper00061203:sin-3(tm1276)_upregulated
	Transcripts that showed significantly decreased expression in morc-1(tm6048) animals, comparing to in N2, after growing at 25C for five generations (late generation).	CuffDiff2	WBPaper00051265:F4_morc-1(tm6048)_downregulated
	Transcripts that showed significantly increased expression in aak-1(tm1944);aak-2(ok524) animals comparing to in N2.	DEseq 1.18.0, adjusted p-value < 0.05.	WBPaper00056471:aak-1(tm1944);aak-2(ok524)_upregulated
	Transcripts that showed significantly increased expression in nhr-114(gk849) comparing to wild type animals at L4 larva.	DESeq2 1.26.0, fold change > 2, FDR < 0.05.	WBPaper00064539:nhr-114(gk849)_upregulated
	Transcripts that showed significantly increased expression in alg-1(gk214), comparing to in N2.	DESeq2, Fold change > 1.5.	WBPaper00051404:alg-1(gk214)_upregulated
	Top 300 transcripts enriched in excretory duct, excretory pore according to single cell RNAseq.	Top 300 enriched transcripts were determined by log2.ratio of the tpm in the cell type vs the tpm in the other cells * the log2 of the cell.type tpm.	WBPaper00061340:Excretory_duct_and_pore
	Significantly differentially expressed genes as determined by microarray analysis of wild-type and cde-1 mutant germlines.	RNAs that changed at least 2-fold with a probability of p < 0.05 were considered differentially regulated between wildtype and cde-1.	WBPaper00035269:cde-1_regulated
	Transcripts that showed significantly altered expression after 24 hour exposure to stavudine (d4T) starting at L1 lava stage.	DESeq	WBPaper00053302:stavudine_24h_regulated
	Transcripts that showed significantly decreased expression in sin-3(tm1276) comparing to in N2 at early embryo when there were only 3 -5 eggs in the adult.	DESeq2, fold change > 2, adjusted p-value < 0.01	WBPaper00058598:sin-3(tm1276)_downregulated

9 Expression Patterns

• Primary Identifier: Expr1031179
• Pattern: Tiling arrays expression graphs

• Primary Identifier: Expr1118
• Pattern: The tissue distribution of HSP43 is localized to specific cells of the vulva, to the spermathecal valve and junctions between cells of the spermathecal cage. It is also concentrated in regions of contact between muscle cells or between muscle cells and the overlying hypodermis. In males, HSP43 was also found to be concentrated in specialized structures of the tail, including rays, copulatory spicules and other structures too poorly resolved to permit reliable identification. This signal was HSP43-specific, and not due to autofluorescence of tail structures, since it was abolished when the antibody was pre-incubated with excess HSP43 protein.

• Primary Identifier: Expr8560
• Remark: Picture: Figure 2. This pattern appears identical with that reported for monoclonal antibody MH5, which labels fibrous organelles containing hemidesmosomes associated with the hypodermis, where it contacts the muscle cells. Similar patterns, but differing in some details, were noted with monoclonal antibodies MH4 and MH46. The specificity of the antiserum for HSP43 is demonstrated by the loss of signal when the antibody is pre-incubated with excess pure recombinant HSP43.
• Pattern: At the same developmental stages, HSP43 staining was seen in desmosomes of cells which make up the spermathecal cage and the spermathecal valve. L2 larvae, which lack vulva and spermatheca, showed prominent HSP43 staining anteriorly in the pharyngealintestinal valve, a structure made up of six cells coupled by a system of desmosomes, and posteriorly in a discreet region probably corresponding to the intestinalrectal valve. In both control and heat-shocked adult and L4 larvae a low level of staining was seen throughout the body, together with very strong, specific, staining in the vulva and spermatheca. In the vulval region, HSP43 was localized in the adherens junctions of vulval epithelial cells, but absent from vulval muscle. Images taken in different focal planes of the vulval region revealed HSP43 staining in the utse cells and in the uv1 cells.
• Subcellular Localization: In the vulval region, HSP43 was localized in the adherens junctions of vulval epithelial cells, In all post-embryonic stages, HSP43 staining was observed in a very regular punctate pattern over body-wall muscle, the columns of labelled spots running circumferentially along the muscle quadrant and the signal being more intense where the muscle cells contact each other. Individual bands could be resolved as doublets separated by a narrow space.

• Primary Identifier: Expr15505
• Pattern: HSP-43 was highly and exclusively expressed in the epidermis and displayed distinct parallel short stripe patterns characteristic of C elegans hemidesmosomes.

• Primary Identifier: Expr2012626
• 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: Expr1026872
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/levin2012

• Primary Identifier: Expr1200270
• Pattern: Data from the TransgeneOme project

• Primary Identifier: Expr2030862
• 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: Expr1144614
• Pattern: Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015

5 GO Annotation

29 Homologues

1 Locations

• Feature . Primary Identifier: WBGene00002024
• Start: 6233151
• End: 6235543
• Strand: -1

5 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

• Length: 2393

1 Sequence Ontology Term