Human Gene GUCY1A1 (uc003iow.3)
  Description: Homo sapiens guanylate cyclase 1, soluble, alpha 3 (GUCY1A1), transcript variant 2, mRNA.
RefSeq Summary (NM_001130682): Soluble guanylate cyclases are heterodimeric proteins that catalyze the conversion of GTP to 3',5'-cyclic GMP and pyrophosphate. The protein encoded by this gene is an alpha subunit of this complex and it interacts with a beta subunit to form the guanylate cyclase enzyme, which is activated by nitric oxide. Several transcript variants encoding a few different isoforms have been found for this gene. [provided by RefSeq, Jan 2012]. Sequence Note: This RefSeq record was created from transcript and genomic sequence data to make the sequence consistent with the reference genome assembly. The genomic coordinates used for the transcript record were based on transcript alignments.
Transcript (Including UTRs)
   Position: hg19 chr4:156,587,862-156,658,214 Size: 70,353 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr4:156,618,020-156,651,383 Size: 33,364 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr4:156,587,862-156,658,214)mRNA (may differ from genome)Protein (690 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsH-INV
LynxMGIneXtProtOMIMPubMedReactome
TreefamUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: GCYA3_HUMAN
DESCRIPTION: RecName: Full=Guanylate cyclase soluble subunit alpha-3; Short=GCS-alpha-3; EC=4.6.1.2; AltName: Full=GCS-alpha-1; AltName: Full=Soluble guanylate cyclase large subunit;
CATALYTIC ACTIVITY: GTP = 3',5'-cyclic GMP + diphosphate.
ENZYME REGULATION: Activated by nitric oxide in the presence of magnesium or manganese ions.
SUBUNIT: Heterodimer of an alpha and a beta chain.
SUBCELLULAR LOCATION: Cytoplasm.
MISCELLANEOUS: There are two types of guanylate cyclases: soluble forms and membrane-associated receptor forms.
SIMILARITY: Belongs to the adenylyl cyclase class-4/guanylyl cyclase family.
SIMILARITY: Contains 1 guanylate cyclase domain.

-  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


+  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: 16.37 RPKM in Colon - Sigmoid
Total median expression: 175.09 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 -157.40442-0.356 Picture PostScript Text
3' UTR -1737.746831-0.254 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
IPR001054 - A/G_cyclase
IPR018297 - A/G_cyclase_CS
IPR011645 - Haem_no_assoc-bd
IPR011644 - Heme_NO-bd

Pfam Domains:
PF00211 - Adenylate and Guanylate cyclase catalytic domain
PF07700 - Haem-NO-binding
PF07701 - Heme NO binding associated

SCOP Domains:
111126 - H-NOX domain
55073 - Adenylyl and guanylyl cyclase catalytic domain

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


ModBase Predicted Comparative 3D Structure on Q02108
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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 orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGD    
 Protein Sequence    
 Alignment    

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0004383 guanylate cyclase activity
GO:0005515 protein binding
GO:0005525 GTP binding
GO:0016829 lyase activity
GO:0016849 phosphorus-oxygen lyase activity
GO:0020037 heme binding
GO:0038023 signaling receptor activity
GO:0004016 adenylate cyclase activity

Biological Process:
GO:0006182 cGMP biosynthetic process
GO:0007263 nitric oxide mediated signal transduction
GO:0008015 blood circulation
GO:0008217 regulation of blood pressure
GO:0009190 cyclic nucleotide biosynthetic process
GO:0030828 positive regulation of cGMP biosynthetic process
GO:0035556 intracellular signal transduction
GO:0052565 response to defense-related host nitric oxide production
GO:0060087 relaxation of vascular smooth muscle

Cellular Component:
GO:0005737 cytoplasm
GO:0005886 plasma membrane
GO:0008074 guanylate cyclase complex, soluble


-  Descriptions from all associated GenBank mRNAs
  X66534 - H.sapiens soluble guanylate cyclase large subunit mRNA.
Y15723 - Homo sapiens mRNA for soluble guanylyl cyclase.
AK312952 - Homo sapiens cDNA, FLJ93408.
BC095395 - Homo sapiens guanylate cyclase 1, soluble, alpha 3, mRNA (cDNA clone IMAGE:5277018).
AK309950 - Homo sapiens cDNA, FLJ99991.
AK096588 - Homo sapiens cDNA FLJ39269 fis, clone OCBBF2010420, highly similar to Guanylate cyclase soluble subunit alpha-3 (EC 4.6.1.2).
BX649180 - Homo sapiens mRNA; cDNA DKFZp686B02227 (from clone DKFZp686B02227).
AK226125 - Homo sapiens mRNA for guanylate cyclase 1, soluble, alpha 3 variant, clone: fj01440.
BX647200 - Homo sapiens mRNA; cDNA DKFZp686M17244 (from clone DKFZp686M17244).
BC012627 - Homo sapiens guanylate cyclase 1, soluble, alpha 3, mRNA (cDNA clone IMAGE:4295630), complete cds.
BC028384 - Homo sapiens guanylate cyclase 1, soluble, alpha 3, mRNA (cDNA clone MGC:33150 IMAGE:4792661), complete cds.
U58855 - Homo sapiens soluble guanylate cyclase large subunit (GC-S-alpha-1) mRNA, complete cds.
CU688482 - Synthetic construct Homo sapiens gateway clone IMAGE:100020018 5' read GUCY1A3 mRNA.
CU680376 - Synthetic construct Homo sapiens gateway clone IMAGE:100023238 5' read GUCY1A3 mRNA.
KJ901474 - Synthetic construct Homo sapiens clone ccsbBroadEn_10868 GUCY1A3 gene, encodes complete protein.
KJ896948 - Synthetic construct Homo sapiens clone ccsbBroadEn_06342 GUCY1A3 gene, encodes complete protein.
JF432244 - Synthetic construct Homo sapiens clone IMAGE:100073411 guanylate cyclase 1, soluble, alpha 3 (GUCY1A3) gene, encodes complete protein.
JD157440 - Sequence 138464 from Patent EP1572962.
JD223037 - Sequence 204061 from Patent EP1572962.
JD414166 - Sequence 395190 from Patent EP1572962.
JD460732 - Sequence 441756 from Patent EP1572962.
JD068383 - Sequence 49407 from Patent EP1572962.
JD470775 - Sequence 451799 from Patent EP1572962.
JD537778 - Sequence 518802 from Patent EP1572962.
JD185836 - Sequence 166860 from Patent EP1572962.
JD160363 - Sequence 141387 from Patent EP1572962.
JD360335 - Sequence 341359 from Patent EP1572962.
AK124244 - Homo sapiens cDNA FLJ42250 fis, clone TKIDN2007828.
BC039414 - Homo sapiens cDNA clone IMAGE:5302158.

-  Biochemical and Signaling Pathways
  KEGG - Kyoto Encyclopedia of Genes and Genomes
hsa00230 - Purine metabolism
hsa04270 - Vascular smooth muscle contraction
hsa04540 - Gap junction
hsa04730 - Long-term depression

BioCyc Knowledge Library
PWY3DJ-7 - cyclic GMP biosynthesis

BioCarta from NCI Cancer Genome Anatomy Project
h_raccPathway - Ion Channels and Their Functional Role in Vascular Endothelium

Reactome (by CSHL, EBI, and GO)

Protein Q02108 (Reactome details) participates in the following event(s):

R-HSA-392143 NO binds to Guanylate Cyclase
R-HSA-392152 Soluble guanylate cyclase converts GTP to cGMP
R-HSA-392154 Nitric oxide stimulates guanylate cyclase
R-HSA-418346 Platelet homeostasis
R-HSA-109582 Hemostasis

-  Other Names for This Gene
  Alternate Gene Symbols: D3DP19, GCYA3_HUMAN, GUC1A3, GUCSA3, GUCY1A3, NM_001130682, NP_001124157, O43843, Q02108, Q8TAH3
UCSC ID: uc003iow.3
RefSeq Accession: NM_001130682
Protein: Q02108 (aka GCYA3_HUMAN)
CCDS: CCDS34085.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001130682.2
exon count: 10CDS single in 3' UTR: no RNA size: 9360
ORF size: 2073CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4190.00frame shift in genome: no % Coverage: 99.85
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.