Human Gene ELK1 (uc004dil.5)
  Description: Homo sapiens ELK1, member of ETS oncogene family (ELK1), transcript variant 3, mRNA.
RefSeq Summary (NM_001257168): This gene is a member of the Ets family of transcription factors and of the ternary complex factor (TCF) subfamily. Proteins of the TCF subfamily form a ternary complex by binding to the the serum response factor and the serum response element in the promoter of the c-fos proto-oncogene. The protein encoded by this gene is a nuclear target for the ras-raf-MAPK signaling cascade. This gene produces multiple isoforms by using alternative translational start codons and by alternative splicing. Related pseudogenes have been identified on chromosomes 7 and 14. [provided by RefSeq, Mar 2012].
Transcript (Including UTRs)
   Position: hg19 chrX:47,494,919-47,510,003 Size: 15,085 Total Exon Count: 6 Strand: -
Coding Region
   Position: hg19 chrX:47,496,434-47,500,840 Size: 4,407 Coding Exon Count: 3 

Page IndexSequence and LinksPrimersGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chrX:47,494,919-47,510,003)mRNA (may differ from genome)Protein (95 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCLynxMalacardsMGIOMIM
PubMedReactomeUniProtKBWikipediaBioGrid 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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): ELK1
CDC HuGE Published Literature: ELK1

-  MalaCards Disease Associations
  MalaCards Gene Search: ELK1
Diseases sorted by gene-association score: hypervitaminosis a (7)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • C093973 2-(2-amino-3-methoxyphenyl)-4H-1-benzopyran-4-one
  • D013749 Tetrachlorodibenzodioxin
  • D006220 Haloperidol
  • C093642 SB 203580
  • C015001 arsenite
  • C057693 troglitazone
  • C028474 1,4-bis(2-(3,5-dichloropyridyloxy))benzene
  • C111118 2',3,3',4',5-pentachloro-4-hydroxybiphenyl
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C049584 2-amino-1-methyl-6-phenylimidazo(4,5-b)pyridine
          more ... click here to view the complete list

+  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: 32.16 RPKM in Brain - Cerebellum
Total median expression: 624.71 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 -118.77322-0.369 Picture PostScript Text
3' UTR -537.641430-0.376 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
  Pfam Domains:
PF00178 - Ets-domain

SCOP Domains:
46785 - "Winged helix" DNA-binding domain

ModBase Predicted Comparative 3D Structure on P19419-2
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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 orthologGenome BrowserNo orthologNo orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGD  WormBase 
 Protein Sequence  Protein Sequence 
 Alignment  Alignment 

-  Descriptions from all associated GenBank mRNAs
  LF211440 - JP 2014500723-A/18943: Polycomb-Associated Non-Coding RNAs.
LF213830 - JP 2014500723-A/21333: Polycomb-Associated Non-Coding RNAs.
BC056150 - Homo sapiens ELK1, member of ETS oncogene family, mRNA (cDNA clone MGC:64973 IMAGE:6503270), complete cds.
AB016193 - Homo sapiens Elk1 mRNA, complete cds.
AK093966 - Homo sapiens cDNA FLJ36647 fis, clone UTERU1000106, moderately similar to ETS-DOMAIN PROTEIN ELK-1.
AX748384 - Sequence 1909 from Patent EP1308459.
AB209047 - Homo sapiens premature mRNA for ELK1, member of ETS oncogene family variant.
JD076179 - Sequence 57203 from Patent EP1572962.
JD071270 - Sequence 52294 from Patent EP1572962.
JD287096 - Sequence 268120 from Patent EP1572962.
JD498853 - Sequence 479877 from Patent EP1572962.
JD376898 - Sequence 357922 from Patent EP1572962.
JD525630 - Sequence 506654 from Patent EP1572962.
LF379596 - JP 2014500723-A/187099: Polycomb-Associated Non-Coding RNAs.
JD210436 - Sequence 191460 from Patent EP1572962.
JD095271 - Sequence 76295 from Patent EP1572962.
JD275978 - Sequence 257002 from Patent EP1572962.
M25269 - Homo sapiens tyrosine kinase (ELK1) oncogene mRNA, complete cds.
JD240776 - Sequence 221800 from Patent EP1572962.
JD105452 - Sequence 86476 from Patent EP1572962.
JD056668 - Sequence 37692 from Patent EP1572962.
JD440354 - Sequence 421378 from Patent EP1572962.
JD213803 - Sequence 194827 from Patent EP1572962.
JD497343 - Sequence 478367 from Patent EP1572962.
JD172173 - Sequence 153197 from Patent EP1572962.
JD544620 - Sequence 525644 from Patent EP1572962.
BC048296 - Homo sapiens, ELK1, member of ETS oncogene family, clone IMAGE:5242063, mRNA, partial cds.
JD251436 - Sequence 232460 from Patent EP1572962.
JD538627 - Sequence 519651 from Patent EP1572962.
JD119510 - Sequence 100534 from Patent EP1572962.
AF000672 - Homo sapiens ELK variant mRNA, complete cds.
CR542252 - Homo sapiens full open reading frame cDNA clone RZPDo834C0626D for gene ELK1, ELK1, member of ETS oncogene family; complete cds, incl. stopcodon.
AK312984 - Homo sapiens cDNA, FLJ93445, highly similar to Homo sapiens ELK1, member of ETS oncogene family (ELK1), mRNA.
KJ891104 - Synthetic construct Homo sapiens clone ccsbBroadEn_00498 ELK1 gene, encodes complete protein.
AB528997 - Synthetic construct DNA, clone: pF1KE0937, Homo sapiens ELK1 gene for ELK1, member of ETS oncogene family, without stop codon, in Flexi system.
CU691122 - Synthetic construct Homo sapiens gateway clone IMAGE:100021770 5' read ELK1 mRNA.
LF379611 - JP 2014500723-A/187114: Polycomb-Associated Non-Coding RNAs.
JD139465 - Sequence 120489 from Patent EP1572962.
JD115449 - Sequence 96473 from Patent EP1572962.
JD189471 - Sequence 170495 from Patent EP1572962.
JD405107 - Sequence 386131 from Patent EP1572962.
JD406025 - Sequence 387049 from Patent EP1572962.
JD458427 - Sequence 439451 from Patent EP1572962.
JD271278 - Sequence 252302 from Patent EP1572962.
JD272531 - Sequence 253555 from Patent EP1572962.
MA447017 - JP 2018138019-A/18943: Polycomb-Associated Non-Coding RNAs.
MA449407 - JP 2018138019-A/21333: Polycomb-Associated Non-Coding RNAs.
MA615173 - JP 2018138019-A/187099: Polycomb-Associated Non-Coding RNAs.
MA615188 - JP 2018138019-A/187114: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04010 - MAPK signaling pathway
hsa04012 - ErbB signaling pathway
hsa04510 - Focal adhesion
hsa04910 - Insulin signaling pathway
hsa04912 - GnRH signaling pathway
hsa05020 - Prion diseases
hsa05140 - Leishmaniasis
hsa05213 - Endometrial cancer

BioCarta from NCI Cancer Genome Anatomy Project
h_p38mapkPathway - p38 MAPK Signaling Pathway
h_bcrPathway - BCR Signaling Pathway
h_epoPathway - EPO Signaling Pathway
h_erkPathway - Erk1/Erk2 Mapk Signaling pathway
h_fcer1Pathway - Fc Epsilon Receptor I Signaling in Mast Cells
h_tollPathway - Toll-Like Receptor Pathway
h_gpcrPathway - Signaling Pathway from G-Protein Families
h_ngfPathway - Nerve growth factor pathway (NGF)
h_pdgfPathway - PDGF Signaling Pathway
h_tcrPathway - T Cell Receptor Signaling Pathway
h_fMLPpathway - fMLP induced chemokine gene expression in HMC-1 cells
h_igf1Pathway - IGF-1 Signaling Pathway
h_metPathway - Signaling of Hepatocyte Growth Factor Receptor
h_At1rPathway - Angiotensin II mediated activation of JNK Pathway via Pyk2 dependent signaling
h_egfPathway - EGF Signaling Pathway
h_il2Pathway - IL 2 signaling pathway
h_il6Pathway - IL 6 signaling pathway
h_insulinPathway - Insulin Signaling Pathway
h_mapkPathway - MAPKinase Signaling Pathway
h_rasPathway - Ras Signaling Pathway

Reactome (by CSHL, EBI, and GO)

Protein P19419 (Reactome details) participates in the following event(s):

R-HSA-198731 ERK1/2 activates ELK1
R-HSA-198753 ERK/MAPK targets
R-HSA-198725 Nuclear Events (kinase and transcription factor activation)
R-HSA-450282 MAPK targets/ Nuclear events mediated by MAP kinases
R-HSA-187037 Signaling by NTRK1 (TRKA)
R-HSA-450294 MAP kinase activation
R-HSA-166520 Signaling by NTRKs
R-HSA-166058 MyD88:Mal cascade initiated on plasma membrane
R-HSA-168164 Toll Like Receptor 3 (TLR3) Cascade
R-HSA-448424 Interleukin-17 signaling
R-HSA-937061 TRIF(TICAM1)-mediated TLR4 signaling
R-HSA-975138 TRAF6 mediated induction of NFkB and MAP kinases upon TLR7/8 or 9 activation
R-HSA-975871 MyD88 cascade initiated on plasma membrane
R-HSA-9006934 Signaling by Receptor Tyrosine Kinases
R-HSA-166016 Toll Like Receptor 4 (TLR4) Cascade
R-HSA-168179 Toll Like Receptor TLR1:TLR2 Cascade
R-HSA-168188 Toll Like Receptor TLR6:TLR2 Cascade
R-HSA-168898 Toll-Like Receptors Cascades
R-HSA-449147 Signaling by Interleukins
R-HSA-166166 MyD88-independent TLR4 cascade
R-HSA-975155 MyD88 dependent cascade initiated on endosome
R-HSA-168142 Toll Like Receptor 10 (TLR10) Cascade
R-HSA-168176 Toll Like Receptor 5 (TLR5) Cascade
R-HSA-162582 Signal Transduction
R-HSA-181438 Toll Like Receptor 2 (TLR2) Cascade
R-HSA-168249 Innate Immune System
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168138 Toll Like Receptor 9 (TLR9) Cascade
R-HSA-168181 Toll Like Receptor 7/8 (TLR7/8) Cascade
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: NM_001257168, NP_001244097, P19419-2, uc004dil.4
UCSC ID: uc004dil.5
RefSeq Accession: NM_001257168
Protein: P19419-2, splice isoform of P19419 CCDS: CCDS59165.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001257168.1
exon count: 6CDS single in 3' UTR: no RNA size: 2056
ORF size: 288CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 602.00frame shift in genome: no % Coverage: 99.22
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
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.