WormMine

WSWS298

An integrated data resource for C. elegans and related nematodes

Gene :

WormBase Gene ID  ? WBGene00020432 Gene Name  hpa-2
Sequence Name  ? T11F1.8 Brief Description  hpa-2 encodes one of 54 C. elegans insulin receptor-related proteins, predicted secreted proteins that contain regions of similarity to the extracellular ligand-binding domains of the insulin and epidermal growth factor (EGF) receptors; hpa-2 functions in older adult animals to negatively regulate aging-associated changes, such as locomotory capacity and pharyngeal pumping; in regulating these aspects of healthspan, hpa-2 appears to function as a negative regulator of the PLC-3/ITR-1 branch of the LET-23/EGFR-mediated signaling pathway; in larvae and young adults, an hpa-2::GFP fusion is expressed in neurons and the phasmid socket cells; in adults, an hpa-2::GFP fusion protein is expressed in the posterior intestine, the amphid and phasmid socket cells, and a few neurons.
Organism  Caenorhabditis elegans Automated Description  Is affected by clk-1 and csr-1 based on microarray and RNA-seq studies.
Biotype  SO:0000336 Genetic Position  II :-9.21327 ±0.030031
Length (nt)  ? 3086
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1 Organism

Name Taxon Id
Caenorhabditis elegans 6239

1 Synonyms

Value
WBGene00020432

Genomics

0 Transcripts

 

Other

0 CDSs

0 RNAi Result

83 Allele

Public Name
gk964317
gk963801
h10561
h9509
gk963671
tm11191
WBVar01695096
WBVar01695099
WBVar01695098
WBVar01695097
WBVar01695100
WBVar01695104
WBVar01695103
WBVar01695102
WBVar01695101
WBVar01695105
WBVar01436743
WBVar01436744
WBVar01546498
WBVar01546499
WBVar01719022
WBVar01719023
WBVar02071589
WBVar01765213
WBVar01765214
WBVar01765211
WBVar01765212
WBVar01765217
WBVar01765215
WBVar01765216

1 Chromosome

WormBase ID Organism Length (nt)
II Caenorhabditis elegans 15279421  

1 Chromosome Location


Feature . Primary Identifier 		Start End Strand
WBGene00020432 2952955 2956040 -1

2 Data Sets

Name URL
WormBaseAcedbConverter  
C. elegans genomic annotations (GFF3 Gene)  

1 Downstream Intergenic Region

WormBase ID Name Sequence Name Length (nt) Chromosome Location Organism
intergenic_region_chrII_2952730..2952954   225 II: 2952730-2952954 Caenorhabditis elegans

3 Expression Clusters

Regulated By Treatment Description Algorithm Primary Identifier
  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:A-class-motor-neurons_L1-larva_expressed
  Down-regulated genes (fold change > 1.5) in two CoQ-deficient clk-1 mutant strains (e2519, qm30) compared to wild types N2. Fold-changes of intensities were calculated from the arithmetic mean of gene expression values between experimental and corresponding control group. Fold change >= 1.5 was used as cut-off. WBPaper00045774:clk-1_downregulated
  Transcripts that showed significantly increased expression in csr-1(RNAi) comparing to in N2 animals fed wth empty vector. DESeq2 v1.20.0,, fold change > 2, FDR < 0.05. WBPaper00066919:csr-1(RNAi)_upregulated

3 Expression Patterns

Remark Reporter Gene Primary Identifier Pattern Subcellular Localization
    Expr2012549 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).  
    Expr1156715 Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/hashimshony2015  
    Expr1014035 Developmental gene expression time-course. Raw data can be downloaded from ftp://caltech.wormbase.org/pub/wormbase/datasets-published/levin2012  

0 GO Annotation

0 Homologues

1 Locations


Feature . Primary Identifier 		Start End Strand
WBGene00020432 2952955 2956040 -1

0 Ontology Annotations

0 Regulates Expr Cluster

1 Sequence

Length
3086

1 Sequence Ontology Term

Identifier Name Description
gene  

1 Strains

WormBase ID
WBStrain00040804

1 Upstream Intergenic Region

WormBase ID Name Sequence Name Length (nt) Chromosome Location Organism
intergenic_region_chrII_2956041..2956064   24 II: 2956041-2956064 Caenorhabditis elegans