Human Gene SRF (uc003oui.3) Description and Page Index
  Description: Homo sapiens serum response factor (c-fos serum response element-binding transcription factor) (SRF), mRNA.
RefSeq Summary (NM_003131): This gene encodes a ubiquitous nuclear protein that stimulates both cell proliferation and differentiation. It is a member of the MADS (MCM1, Agamous, Deficiens, and SRF) box superfamily of transcription factors. This protein binds to the serum response element (SRE) in the promoter region of target genes. This protein regulates the activity of many immediate-early genes, for example c-fos, and thereby participates in cell cycle regulation, apoptosis, cell growth, and cell differentiation. This gene is the downstream target of many pathways; for example, the mitogen-activated protein kinase pathway (MAPK) that acts through the ternary complex factors (TCFs). Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2014].
Transcript (Including UTRs)
   Position: hg19 chr6:43,138,920-43,149,244 Size: 10,325 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr6:43,139,395-43,146,928 Size: 7,534 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsGenetic AssociationsMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr6:43,138,920-43,149,244)mRNA (may differ from genome)Protein (508 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: SRF_HUMAN
DESCRIPTION: RecName: Full=Serum response factor; Short=SRF;
FUNCTION: SRF is a transcription factor that binds to the serum response element (SRE), a short sequence of dyad symmetry located 300 bp to the 5' of the site of transcription initiation of some genes (such as FOS). Required for cardiac differentiation and maturation.
SUBUNIT: Binds DNA as a multimer, probably a dimer. Interacts with MLLT7/FOXO4, NKX3A and SSRP1. Interacts with ARID2 and SRFBP1 (By similarity). Forms complexes with ARID2, MYOCD, NKX2-5 and SRFBP1 (By similarity). Forms a nuclear ternary complex with MKL1 and SCAI. Interacts with LPXN.
INTERACTION: Q969V6:MKL1; NbExp=2; IntAct=EBI-493034, EBI-493122; Q9ULH7:MKL2; NbExp=3; IntAct=EBI-493034, EBI-493007; Q8IZQ8:MYOCD; NbExp=2; IntAct=EBI-493034, EBI-493384;
SUBCELLULAR LOCATION: Nucleus.
PTM: Phosphorylated by PRKDC.
SIMILARITY: Contains 1 MADS-box domain.

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

-  MalaCards Disease Associations
  MalaCards Gene Search: SRF
Diseases sorted by gene-association score: lymphangioleiomyomatosis (4), fumarate hydratase deficiency (3), myopericytoma (3), heart disease (2), rheumatoid vasculitis (1), dilated cardiomyopathy (1)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           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: 67.58 RPKM in Colon - Sigmoid
Total median expression: 1184.34 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 -265.71475-0.559 Picture PostScript Text
3' UTR -1023.322316-0.442 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
IPR002100 - TF_MADSbox

Pfam Domains:
PF00319 - SRF-type transcription factor (DNA-binding and dimerisation domain)

SCOP Domains:
55455 - SRF-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help

1HBX
- X-ray MuPIT

1K6O
- X-ray MuPIT

1SRS
- X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P11831
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 orthologGenome BrowserGenome BrowserGenome BrowserGenome Browser
Gene Details  Gene DetailsGene DetailsGene Details
Gene Sorter  Gene SorterGene SorterGene Sorter
  EnsemblFlyBaseWormBaseSGD
  Protein SequenceProtein SequenceProtein SequenceProtein Sequence
  AlignmentAlignmentAlignmentAlignment

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000978 RNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0000981 RNA polymerase II transcription factor activity, sequence-specific DNA binding
GO:0000982 transcription factor activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0000987 core promoter proximal region sequence-specific DNA binding
GO:0001076 transcription factor activity, RNA polymerase II transcription factor binding
GO:0001077 transcriptional activator activity, RNA polymerase II core promoter proximal region sequence-specific binding
GO:0001085 RNA polymerase II transcription factor binding
GO:0001228 transcriptional activator activity, RNA polymerase II transcription regulatory region sequence-specific binding
GO:0003677 DNA binding
GO:0003682 chromatin binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003705 transcription factor activity, RNA polymerase II distal enhancer sequence-specific binding
GO:0005515 protein binding
GO:0008134 transcription factor binding
GO:0010736 serum response element binding
GO:0031490 chromatin DNA binding
GO:0042803 protein homodimerization activity
GO:0042826 histone deacetylase binding
GO:0043565 sequence-specific DNA binding
GO:0046983 protein dimerization activity
GO:0070878 primary miRNA binding
GO:0000983 transcription factor activity, RNA polymerase II core promoter sequence-specific

Biological Process:
GO:0001569 branching involved in blood vessel morphogenesis
GO:0001666 response to hypoxia
GO:0001701 in utero embryonic development
GO:0001707 mesoderm formation
GO:0001764 neuron migration
GO:0001829 trophectodermal cell differentiation
GO:0001947 heart looping
GO:0002011 morphogenesis of an epithelial sheet
GO:0002042 cell migration involved in sprouting angiogenesis
GO:0002521 leukocyte differentiation
GO:0003257 positive regulation of transcription from RNA polymerase II promoter involved in myocardial precursor cell differentiation
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006366 transcription from RNA polymerase II promoter
GO:0007015 actin filament organization
GO:0007160 cell-matrix adhesion
GO:0007275 multicellular organism development
GO:0007369 gastrulation
GO:0007507 heart development
GO:0007616 long-term memory
GO:0008285 negative regulation of cell proliferation
GO:0008306 associative learning
GO:0009636 response to toxic substance
GO:0009725 response to hormone
GO:0010669 epithelial structure maintenance
GO:0010735 positive regulation of transcription via serum response element binding
GO:0021766 hippocampus development
GO:0022028 tangential migration from the subventricular zone to the olfactory bulb
GO:0030036 actin cytoskeleton organization
GO:0030038 contractile actin filament bundle assembly
GO:0030155 regulation of cell adhesion
GO:0030168 platelet activation
GO:0030220 platelet formation
GO:0030336 negative regulation of cell migration
GO:0030878 thyroid gland development
GO:0030900 forebrain development
GO:0031175 neuron projection development
GO:0033561 regulation of water loss via skin
GO:0034097 response to cytokine
GO:0035855 megakaryocyte development
GO:0035912 dorsal aorta morphogenesis
GO:0042789 mRNA transcription from RNA polymerase II promoter
GO:0043149 stress fiber assembly
GO:0043589 skin morphogenesis
GO:0045059 positive thymic T cell selection
GO:0045214 sarcomere organization
GO:0045597 positive regulation of cell differentiation
GO:0045773 positive regulation of axon extension
GO:0045893 positive regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0045987 positive regulation of smooth muscle contraction
GO:0046016 positive regulation of transcription by glucose
GO:0046716 muscle cell cellular homeostasis
GO:0048538 thymus development
GO:0048589 developmental growth
GO:0048666 neuron development
GO:0048821 erythrocyte development
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0051150 regulation of smooth muscle cell differentiation
GO:0051491 positive regulation of filopodium assembly
GO:0055003 cardiac myofibril assembly
GO:0060055 angiogenesis involved in wound healing
GO:0060218 hematopoietic stem cell differentiation
GO:0060261 positive regulation of transcription initiation from RNA polymerase II promoter
GO:0060292 long term synaptic depression
GO:0060324 face development
GO:0060347 heart trabecula formation
GO:0060425 lung morphogenesis
GO:0060532 bronchus cartilage development
GO:0060534 trachea cartilage development
GO:0060947 cardiac vascular smooth muscle cell differentiation
GO:0061029 eyelid development in camera-type eye
GO:0061145 lung smooth muscle development
GO:0070830 bicellular tight junction assembly
GO:0071333 cellular response to glucose stimulus
GO:0090009 primitive streak formation
GO:0090136 epithelial cell-cell adhesion
GO:0090398 cellular senescence
GO:0098609 cell-cell adhesion
GO:1900222 negative regulation of beta-amyloid clearance
GO:1902894 negative regulation of pri-miRNA transcription from RNA polymerase II promoter
GO:1902895 positive regulation of pri-miRNA transcription from RNA polymerase II promoter

Cellular Component:
GO:0000790 nuclear chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm


-  Descriptions from all associated GenBank mRNAs
  BC052572 - Homo sapiens serum response factor (c-fos serum response element-binding transcription factor), mRNA (cDNA clone MGC:59837 IMAGE:6462845), complete cds.
J03161 - Human serum response factor (SRF) mRNA, complete cds.
JD187166 - Sequence 168190 from Patent EP1572962.
BC048211 - Homo sapiens serum response factor (c-fos serum response element-binding transcription factor), mRNA (cDNA clone MGC:52246 IMAGE:5808348), complete cds.
JD106445 - Sequence 87469 from Patent EP1572962.
AB209128 - Homo sapiens mRNA for serum response factor (c-fos serum response element-binding transcription factor) variant protein.
JD468790 - Sequence 449814 from Patent EP1572962.
AB464198 - Synthetic construct DNA, clone: pF1KB7778, Homo sapiens SRF gene for serum response factor, without stop codon, in Flexi system.
AK300467 - Homo sapiens cDNA FLJ51683 complete cds, highly similar to Serum response factor.
JD458401 - Sequence 439425 from Patent EP1572962.
JD400431 - Sequence 381455 from Patent EP1572962.
JD193921 - Sequence 174945 from Patent EP1572962.
JD070094 - Sequence 51118 from Patent EP1572962.
JD272759 - Sequence 253783 from Patent EP1572962.
JD123151 - Sequence 104175 from Patent EP1572962.
JD527979 - Sequence 509003 from Patent EP1572962.
JD480246 - Sequence 461270 from Patent EP1572962.
JD294586 - Sequence 275610 from Patent EP1572962.
JD269853 - Sequence 250877 from Patent EP1572962.
JD513816 - Sequence 494840 from Patent EP1572962.
JD191420 - Sequence 172444 from Patent EP1572962.
JD525470 - Sequence 506494 from Patent EP1572962.
JD371559 - Sequence 352583 from Patent EP1572962.
JD338135 - Sequence 319159 from Patent EP1572962.
JD464762 - Sequence 445786 from Patent EP1572962.
JD225453 - Sequence 206477 from Patent EP1572962.
JD399857 - Sequence 380881 from Patent EP1572962.
JD432099 - Sequence 413123 from Patent EP1572962.
JD389509 - Sequence 370533 from Patent EP1572962.
JD553741 - Sequence 534765 from Patent EP1572962.
JD196695 - Sequence 177719 from Patent EP1572962.
JD300278 - Sequence 281302 from Patent EP1572962.
JD435680 - Sequence 416704 from Patent EP1572962.
JD221417 - Sequence 202441 from Patent EP1572962.
JD115057 - Sequence 96081 from Patent EP1572962.
JD565090 - Sequence 546114 from Patent EP1572962.
JD538730 - Sequence 519754 from Patent EP1572962.
JD343102 - Sequence 324126 from Patent EP1572962.
JD409105 - Sequence 390129 from Patent EP1572962.
JD445765 - Sequence 426789 from Patent EP1572962.
JD420673 - Sequence 401697 from Patent EP1572962.
JD229929 - Sequence 210953 from Patent EP1572962.
JD371855 - Sequence 352879 from Patent EP1572962.
JD338786 - Sequence 319810 from Patent EP1572962.
JD200469 - Sequence 181493 from Patent EP1572962.
JD422913 - Sequence 403937 from Patent EP1572962.
JD135143 - Sequence 116167 from Patent EP1572962.
JD233957 - Sequence 214981 from Patent EP1572962.
JD544545 - Sequence 525569 from Patent EP1572962.
JD446024 - Sequence 427048 from Patent EP1572962.
JD172006 - Sequence 153030 from Patent EP1572962.
JD544413 - Sequence 525437 from Patent EP1572962.
JD171017 - Sequence 152041 from Patent EP1572962.
JD168387 - Sequence 149411 from Patent EP1572962.
JD069489 - Sequence 50513 from Patent EP1572962.
JD471108 - Sequence 452132 from Patent EP1572962.
JD434301 - Sequence 415325 from Patent EP1572962.
JD043374 - Sequence 24398 from Patent EP1572962.
JD374922 - Sequence 355946 from Patent EP1572962.
JD399472 - Sequence 380496 from Patent EP1572962.
JD258039 - Sequence 239063 from Patent EP1572962.
JD170844 - Sequence 151868 from Patent EP1572962.
JD151111 - Sequence 132135 from Patent EP1572962.
JD047271 - Sequence 28295 from Patent EP1572962.
JD442269 - Sequence 423293 from Patent EP1572962.
JD147753 - Sequence 128777 from Patent EP1572962.
JD147754 - Sequence 128778 from Patent EP1572962.
JD387499 - Sequence 368523 from Patent EP1572962.
JD037891 - Sequence 18915 from Patent EP1572962.
JD207113 - Sequence 188137 from Patent EP1572962.
JD406390 - Sequence 387414 from Patent EP1572962.
JD243617 - Sequence 224641 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa04010 - MAPK signaling pathway

BioCarta from NCI Cancer Genome Anatomy Project
h_pdgfPathway - PDGF Signaling Pathway
h_insulinPathway - Insulin Signaling Pathway
h_egfPathway - EGF Signaling Pathway
h_ghPathway - Growth Hormone Signaling Pathway
h_hopPathway - Hop Pathway in Cardiac Development
h_il6Pathway - IL 6 signaling pathway
h_malPathway - Role of MAL in Rho-Mediated Activation of SRF
h_igf1Pathway - IGF-1 Signaling Pathway

Reactome (by CSHL, EBI, and GO)

Protein P11831 (Reactome details) participates in the following event(s):

R-HSA-5665998 MKL1 binds SRF
R-HSA-5666008 SCAI binds SRF:MKL1
R-HSA-5666046 SRF:MKL1 binds ITGB1 Gene
R-HSA-5663220 RHO GTPases Activate Formins
R-HSA-195258 RHO GTPase Effectors
R-HSA-194315 Signaling by Rho GTPases
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: NM_003131, NP_003122, P11831, Q5T648, SRF_HUMAN
UCSC ID: uc003oui.3
RefSeq Accession: NM_003131
Protein: P11831 (aka SRF_HUMAN)
CCDS: CCDS4889.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_003131.2
exon count: 7CDS single in 3' UTR: no RNA size: 4343
ORF size: 1527CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 2768.00frame shift in genome: no % Coverage: 99.42
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.