Gene: NARF

LinkedOmicsKB © 2022-2023 Zhang Lab

Basic information

Full name
nuclear prelamin A recognition factor
Ensembl
ENSG00000141562.18
Summary
Several proteins have been found to be prenylated and methylated at their carboxyl-terminal ends. Prenylation was initially believed to be important only for membrane attachment. However, another role for prenylation appears to be its importance in protein-protein interactions. The only nuclear proteins known to be prenylated in mammalian cells are prelamin A- and B-type lamins. Prelamin A is farnesylated and carboxymethylated on the cysteine residue of a carboxyl-terminal CaaX motif. This post-translationally modified cysteine residue is removed from prelamin A when it is endoproteolytically processed into mature lamin A. The protein encoded by this gene binds to the prenylated prelamin A carboxyl-terminal tail domain. It may be a component of a prelamin A endoprotease complex. The encoded protein is located in the nucleus, where it partially colocalizes with the nuclear lamina. It shares limited sequence similarity with iron-only bacterial hydrogenases. Alternatively spliced transcript variants encoding different isoforms have been identified for this gene, including one with a novel exon that is generated by RNA editing. [provided by RefSeq, Jul 2008]

Protein product

Phosphosites on the primary protein product

Tumor and normal comparison

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Signed p-values
Data type
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
RNA2.2e-75-3e-26--1.6e-54.6e-305.6e-34-8.8e-3-
protein5.7e-56----3.8e-41.4e-313.4e-19-2.6e-84.2e-8

* P-values are from Wilcoxon rank sum test and can be clicked to show the box plots. Positive values mean higher abundance in tumor. BRCA and GBM do not have normal samples.

mRNA expression at gene level
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC8.599.51010.51111.51212.5log2(RSEM+1)tumornormal
Protein expression
BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC1516171819202122232425log2(MS1 intensity)tumornormal

* Mild outlier: filled circle; Extreme outlier: empty circle.

Phenotype and mutation association

Manhattan plot summarizing associations of phenotypes and mutations across all cohorts and omics data types

BRCACCRCCCOADGBMHNSCCLSCCLUADOVPDACUCEC02468101214160-2-4-6-8-10-12-14-16Pan-cancer0246810121416182022242628300-2-4-6-8-10-12-14-16-18-20-22-24-26-28-30proteinRNASCNVclinicalpathwaycell typegenomicmutation-log10 of P-value

* Data points of significant associations above and below the dotted lines can be hovered to show the phenotype.

Associations of the protein abundance of NARF with phenotypes and mutations

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Signed p-values
Phenotype
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
KINASE-PSP_CDK13.3e-312.2e-16-0.94-7.7e-62.5e-60.0022.2e-16-0.830.0213.4e-5
PROGENy: Hypoxia4.2e-305.8e-60.97-2.5e-71.7e-45.2e-42.1e-4-0.731.4e-82.2e-16
KINASE-PSP_CDK21.2e-292.2e-16-0.7-2.2e-33.2e-51.7e-42.2e-160.960.0685.1e-7
PERT-PSP_NOCODAZOLE3.3e-272.3e-11-0.5-8.3e-65.4e-67.1e-55.4e-90.360.0611.6e-6
HALLMARK_G2M_CHECKPOINT1.7e-264e-80.11-8.5e-31.1e-31.2e-73.9e-9-0.95.7e-32.6e-7
HALLMARK_E2F_TARGETS1.1e-255.1e-80.089-2.4e-32.2e-31.7e-71.9e-8-0.479.8e-34.6e-8
HALLMARK_MTORC1_SIGNALING1.9e-221.6e-60.56-1.0e-50.170.0321.4e-6-0.255.3e-52.2e-16
HALLMARK_GLYCOLYSIS1.6e-204.6e-60.77-6.1e-83.6e-40.0630.002-0.48.4e-65.5e-8
HALLMARK_MYC_TARGETS_V21.6e-183.3e-7-0.64-1.3e-49.7e-31.3e-63.4e-7-0.430.0996.0e-6
HALLMARK_DNA_REPAIR1.5e-150.0310.82-2.6e-60.0152.6e-62.6e-30.840.0447.1e-6
Showing 1 to 10 of 256 rows

* P-values could be from test for Spearman correlation, Wilcoxon rank sum test, Jonckheere-Terpstra trend test or Cox regression depending on the data type. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Cis-association

Associations between omics data of NARF

BRCA0.670.250.55proteinmRNASCNVmethylationCCRCC-0.030.130.31-0.160.150.00proteinmRNASCNVmethylationCOAD0.28proteinmRNASCNVmethylationGBM0.600.100.17-0.020.41-0.09proteinmRNASCNVmethylationHNSCC0.330.130.210.070.370.17proteinmRNASCNVmethylationLSCC0.72-0.150.35-0.080.53-0.16proteinmRNASCNVmethylationLUAD0.53-0.070.22-0.140.490.07proteinmRNASCNVmethylationOV0.200.230.67proteinmRNASCNVmethylationPDAC0.610.010.24-0.180.59-0.06proteinmRNASCNVmethylationUCEC0.82-0.090.23-0.090.24-0.06proteinmRNASCNVmethylation

* The numbers are Spearman correlation coefficients and can be clicked to show the scatter plots. The color and size of the circles correlate with the coefficients.

Trans-association

Associations of the protein abundance of NARF and the protein abundance of other genes

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Signed p-values
Gene
Meta P
BRCA
CCRCC
COAD
GBM
HNSCC
LSCC
LUAD
OV
PDAC
UCEC
No matching records found

* P-values are from test for Spearman correlation. P-values for individual cohorts can be clicked to show the data plots. The matrix icons in each row can be clicked to show a heatmap summary of associations across all cohorts and omics. The rows in the table can be expanded to show results from other omics.

Gene set enrichment analysis

Submit genes and the common logarithm of the p-values of their association with to WebGestalt.