Human Gene EGR1 (ENST00000239938.5_4) from GENCODE V47lift37
  Description: early growth response 1 (from RefSeq NM_001964.3)
Gencode Transcript: ENST00000239938.5_4
Gencode Gene: ENSG00000120738.8_7
Transcript (Including UTRs)
   Position: hg19 chr5:137,801,168-137,804,992 Size: 3,825 Total Exon Count: 2 Strand: +
Coding Region
   Position: hg19 chr5:137,801,451-137,803,770 Size: 2,320 Coding Exon Count: 2 

Page IndexSequence and LinksPrimersMalaCardsCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr5:137,801,168-137,804,992)mRNA (may differ from genome)Protein (543 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: EGR1
Diseases sorted by gene-association score: ischemia (45), familial tumoral calcinosis (7), tumoral calcinosis, familial, normophosphatemic (6), wilms tumor susceptibility-5 (6), corticosteroid-binding globulin deficiency (6), esophageal cancer (2), prostate cancer (2), pheochromocytoma (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 807.14 RPKM in Fallopian Tube
Total median expression: 3612.01 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -104.90283-0.371 Picture PostScript Text
3' UTR -345.201222-0.282 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR021839 - DUF3432
IPR021849 - DUF3446
IPR007087 - Znf_C2H2
IPR015880 - Znf_C2H2-like
IPR013087 - Znf_C2H2/integrase_DNA-bd

Pfam Domains:
PF00096 - Zinc finger, C2H2 type
PF11914 - Domain of unknown function (DUF3432)
PF11928 - Early growth response N-terminal domain
PF13913 - zinc-finger of a C2HC-type

SCOP Domains:
57667 - beta-beta-alpha zinc fingers
57783 - Zinc beta-ribbon
57903 - FYVE/PHD zinc finger

ModBase Predicted Comparative 3D Structure on Q546S1
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000977 RNA polymerase II regulatory region sequence-specific DNA binding
GO:0000982 transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0003676 nucleic acid binding
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0044212 transcription regulatory region DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001666 response to hypoxia
GO:0002931 response to ischemia
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0009749 response to glucose
GO:0030217 T cell differentiation
GO:0030509 BMP signaling pathway
GO:0032868 response to insulin
GO:0035914 skeletal muscle cell differentiation
GO:0042981 regulation of apoptotic process
GO:0044849 estrous cycle
GO:0045080 positive regulation of chemokine biosynthetic process
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0046886 positive regulation of hormone biosynthetic process
GO:0050725 positive regulation of interleukin-1 beta biosynthetic process
GO:0061418 regulation of transcription from RNA polymerase II promoter in response to hypoxia
GO:0071310 cellular response to organic substance
GO:0071480 cellular response to gamma radiation
GO:0090090 negative regulation of canonical Wnt signaling pathway
GO:1901216 positive regulation of neuron death
GO:1902949 positive regulation of tau-protein kinase activity
GO:2000182 regulation of progesterone biosynthetic process

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm


-  Descriptions from all associated GenBank mRNAs
  AK298101 - Homo sapiens cDNA FLJ56577 complete cds, highly similar to Early growth response protein 1.
AK301065 - Homo sapiens cDNA FLJ60905 complete cds, highly similar to Early growth response protein 1.
FW340018 - Screening.
X52541 - Human mRNA for early growth response protein 1 (hEGR1).
BC073983 - Homo sapiens early growth response 1, mRNA (cDNA clone MGC:88036 IMAGE:6188360), complete cds.
E03569 - cDNA encoding a protein related to differential induction of human promyelo-leukemia cells,HL-60.
M62829 - Human transcription factor ETR103 mRNA, complete cds.
JD458438 - Sequence 439462 from Patent EP1572962.
JD458439 - Sequence 439463 from Patent EP1572962.
M80583 - Homo sapiens zinc finger protein mRNA.
JD203331 - Sequence 184355 from Patent EP1572962.
JD157259 - Sequence 138283 from Patent EP1572962.
JD427715 - Sequence 408739 from Patent EP1572962.
JD283730 - Sequence 264754 from Patent EP1572962.
JD232491 - Sequence 213515 from Patent EP1572962.
JD156270 - Sequence 137294 from Patent EP1572962.
JD128772 - Sequence 109796 from Patent EP1572962.
JD405772 - Sequence 386796 from Patent EP1572962.
BC041701 - Homo sapiens early growth response 1, mRNA (cDNA clone IMAGE:5217446), containing frame-shift errors.
CU687282 - Synthetic construct Homo sapiens gateway clone IMAGE:100023224 5' read EGR1 mRNA.
KJ891093 - Synthetic construct Homo sapiens clone ccsbBroadEn_00487 EGR1 gene, encodes complete protein.
AB591041 - Synthetic construct DNA, clone: pFN21AB7053, Homo sapiens EGR1 gene for early growth response 1, without stop codon, in Flexi system.
EU832310 - Synthetic construct Homo sapiens clone HAIB:100067339; DKFZo008D0327 early growth response 1 protein (EGR1) gene, encodes complete protein.
EU832395 - Synthetic construct Homo sapiens clone HAIB:100067424; DKFZo004D0328 early growth response 1 protein (EGR1) gene, encodes complete protein.
KM114058 - Homo sapiens early growth response 1 (Egr-1) mRNA, complete cds.
JD538560 - Sequence 519584 from Patent EP1572962.
JD167889 - Sequence 148913 from Patent EP1572962.
JD434652 - Sequence 415676 from Patent EP1572962.
JD441976 - Sequence 423000 from Patent EP1572962.
JD326538 - Sequence 307562 from Patent EP1572962.
JD252926 - Sequence 233950 from Patent EP1572962.
JD162946 - Sequence 143970 from Patent EP1572962.
JD200449 - Sequence 181473 from Patent EP1572962.
JD303520 - Sequence 284544 from Patent EP1572962.
JD110724 - Sequence 91748 from Patent EP1572962.
JD191414 - Sequence 172438 from Patent EP1572962.
JD392609 - Sequence 373633 from Patent EP1572962.
JD451911 - Sequence 432935 from Patent EP1572962.
JD229000 - Sequence 210024 from Patent EP1572962.
JD557981 - Sequence 539005 from Patent EP1572962.
M24019 - Human putative zinc finger protein mRNA, 3' flank.
JD343361 - Sequence 324385 from Patent EP1572962.
JD490779 - Sequence 471803 from Patent EP1572962.
JD304635 - Sequence 285659 from Patent EP1572962.
JD349837 - Sequence 330861 from Patent EP1572962.
JD239991 - Sequence 221015 from Patent EP1572962.
MK681487 - Homo sapiens EGR1 mRNA, complete cds.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_cdk5Pathway - Phosphorylation of MEK1 by cdk5/p35 down regulates the MAP kinase pathway

-  Other Names for This Gene
  Alternate Gene Symbols: EGR1 , ENST00000239938.1, ENST00000239938.2, ENST00000239938.3, ENST00000239938.4, hCG_18777 , NM_001964, Q546S1, Q546S1_HUMAN, uc317egl.1, uc317egl.2
UCSC ID: ENST00000239938.5_4
RefSeq Accession: NM_001964.3
Protein: Q546S1

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.