Human Gene CCN1 (ENST00000451137.7_4) from GENCODE V47lift37
  Description: cellular communication network factor 1 (from RefSeq NM_001554.5)
Gencode Transcript: ENST00000451137.7_4
Gencode Gene: ENSG00000142871.18_16
Transcript (Including UTRs)
   Position: hg19 chr1:86,046,444-86,049,633 Size: 3,190 Total Exon Count: 5 Strand: +
Coding Region
   Position: hg19 chr1:86,046,668-86,048,725 Size: 2,058 Coding Exon Count: 5 

Page IndexSequence and LinksUniProtKB CommentsPrimersGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:86,046,444-86,049,633)mRNA (may differ from genome)Protein (381 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsMGI
OMIMPubMedUniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: Q6FI18_HUMAN
DESCRIPTION: SubName: Full=CYR61 protein; SubName: Full=Cysteine-rich, angiogenic inducer, 61, isoform CRA_a; SubName: Full=cDNA, FLJ95400, highly similar to Homo sapiens cysteine-rich, angiogenic inducer, 61 (CYR61), mRNA;
SIMILARITY: Contains 1 IGFBP N-terminal 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: 640.21 RPKM in Fallopian Tube
Total median expression: 5148.07 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 -78.60224-0.351 Picture PostScript Text
3' UTR -232.00908-0.256 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
IPR006208 - Cys_knot
IPR006207 - Cys_knot_C
IPR000867 - IGFBP-like
IPR012395 - IGFBP_CNN
IPR017891 - Insulin_GF-bd_Cys-rich_CS
IPR000884 - Thrombospondin_1_rpt
IPR001007 - VWF_C

Pfam Domains:
PF00007 - Cystine-knot domain
PF00090 - Thrombospondin type 1 domain
PF00093 - von Willebrand factor type C domain
PF00219 - Insulin-like growth factor binding protein
PF19035 - CCN3 Nov like TSP1 domain

SCOP Domains:
57603 - FnI-like domain
57184 - Growth factor receptor domain
82895 - TSP-1 type 1 repeat

ModBase Predicted Comparative 3D Structure on Q6FI18
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 orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0000166 nucleotide binding
GO:0005178 integrin binding
GO:0005520 insulin-like growth factor binding
GO:0050840 extracellular matrix binding

Biological Process:
GO:0001558 regulation of cell growth
GO:0001649 osteoblast differentiation
GO:0002041 intussusceptive angiogenesis
GO:0003181 atrioventricular valve morphogenesis
GO:0003278 apoptotic process involved in heart morphogenesis
GO:0003281 ventricular septum development
GO:0007155 cell adhesion
GO:0010518 positive regulation of phospholipase activity
GO:0010811 positive regulation of cell-substrate adhesion
GO:0030198 extracellular matrix organization
GO:0030335 positive regulation of cell migration
GO:0043065 positive regulation of apoptotic process
GO:0043066 negative regulation of apoptotic process
GO:0043280 positive regulation of cysteine-type endopeptidase activity involved in apoptotic process
GO:0045597 positive regulation of cell differentiation
GO:0060413 atrial septum morphogenesis
GO:0060591 chondroblast differentiation
GO:0060710 chorio-allantoic fusion
GO:0060716 labyrinthine layer blood vessel development
GO:0061036 positive regulation of cartilage development
GO:0072593 reactive oxygen species metabolic process
GO:0098609 cell-cell adhesion
GO:2000304 positive regulation of ceramide biosynthetic process

Cellular Component:
GO:0005576 extracellular region


-  Descriptions from all associated GenBank mRNAs
  LF211939 - JP 2014500723-A/19442: Polycomb-Associated Non-Coding RNAs.
LF206360 - JP 2014500723-A/13863: Polycomb-Associated Non-Coding RNAs.
AK314571 - Homo sapiens cDNA, FLJ95400, highly similar to Homo sapiens cysteine-rich, angiogenic inducer, 61 (CYR61), mRNA.
AK295430 - Homo sapiens cDNA FLJ58182 complete cds, highly similar to Protein CYR61 precursor.
AK223385 - Homo sapiens mRNA for cysteine-rich, angiogenic inducer, 61 variant, clone: FCC106F07.
LF213874 - JP 2014500723-A/21377: Polycomb-Associated Non-Coding RNAs.
BC016952 - Homo sapiens cysteine-rich, angiogenic inducer, 61, mRNA (cDNA clone MGC:21510 IMAGE:3886130), complete cds.
Y12084 - H.sapiens mRNA for gig1 protein.
Z98053 - Homo sapiens mRNA for hCYR61 protein.
Y11307 - H.sapiens CYR61 mRNA.
BC009199 - Homo sapiens cysteine-rich, angiogenic inducer, 61, mRNA (cDNA clone MGC:15336 IMAGE:3830296), complete cds.
U62015 - Homo sapiens Cyr61 mRNA, complete cds.
BC001271 - Homo sapiens cysteine-rich, angiogenic inducer, 61, mRNA (cDNA clone MGC:5081 IMAGE:3454581), complete cds.
AF003594 - Homo sapiens growth-factor inducible immediate early gene product CYR61 mRNA, complete cds.
AF031385 - Homo sapiens Cyr61 protein (CYR61) mRNA, complete cds.
JD452349 - Sequence 433373 from Patent EP1572962.
DQ894449 - Synthetic construct Homo sapiens clone IMAGE:100008909; FLH170531.01L; RZPDo839G0697D cysteine-rich, angiogenic inducer, 61 (CYR61) gene, encodes complete protein.
DQ891262 - Synthetic construct clone IMAGE:100003892; FLH170535.01X; RZPDo839G0698D cysteine-rich, angiogenic inducer, 61 (CYR61) gene, encodes complete protein.
AB587390 - Synthetic construct DNA, clone: pF1KB5572, Homo sapiens CYR61 gene for cysteine-rich, angiogenic inducer, 61, without stop codon, in Flexi system.
CR536519 - Homo sapiens full open reading frame cDNA clone RZPDo834B1120D for gene CYR61, cysteine-rich, angiogenic inducer, 61; complete cds, incl. stopcodon.
CU677777 - Synthetic construct Homo sapiens gateway clone IMAGE:100017141 5' read CYR61 mRNA.
KJ901039 - Synthetic construct Homo sapiens clone ccsbBroadEn_10433 CYR61 gene, encodes complete protein.
AF003114 - Homo sapiens CYR61 mRNA, complete cds.
AK096420 - Homo sapiens cDNA FLJ39101 fis, clone NTONG2002807, highly similar to CYR61 PROTEIN PRECURSOR.
LF353528 - JP 2014500723-A/161031: Polycomb-Associated Non-Coding RNAs.
Z50168 - H.sapiens partial mRNA; single read (clone A33210).
AL832891 - Homo sapiens mRNA; cDNA DKFZp667A014 (from clone DKFZp667A014).
LF353527 - JP 2014500723-A/161030: Polycomb-Associated Non-Coding RNAs.
LF353525 - JP 2014500723-A/161028: Polycomb-Associated Non-Coding RNAs.
LF353523 - JP 2014500723-A/161026: Polycomb-Associated Non-Coding RNAs.
LF353521 - JP 2014500723-A/161024: Polycomb-Associated Non-Coding RNAs.
LF353519 - JP 2014500723-A/161022: Polycomb-Associated Non-Coding RNAs.
JD025971 - Sequence 6995 from Patent EP1572962.
JD032008 - Sequence 13032 from Patent EP1572962.
LF353518 - JP 2014500723-A/161021: Polycomb-Associated Non-Coding RNAs.
Z97068 - Homo sapiens mRNA for alternative spliced Cyr61 protein, partial.
JD102894 - Sequence 83918 from Patent EP1572962.
JD540089 - Sequence 521113 from Patent EP1572962.
JD167758 - Sequence 148782 from Patent EP1572962.
Y09859 - H.sapiens mRNA fragment expressed in benign tissue of prostate cancer patients.
LF353517 - JP 2014500723-A/161020: Polycomb-Associated Non-Coding RNAs.
MA449451 - JP 2018138019-A/21377: Polycomb-Associated Non-Coding RNAs.
MA447516 - JP 2018138019-A/19442: Polycomb-Associated Non-Coding RNAs.
MA441937 - JP 2018138019-A/13863: Polycomb-Associated Non-Coding RNAs.
MA589105 - JP 2018138019-A/161031: Polycomb-Associated Non-Coding RNAs.
MA589104 - JP 2018138019-A/161030: Polycomb-Associated Non-Coding RNAs.
MA589102 - JP 2018138019-A/161028: Polycomb-Associated Non-Coding RNAs.
MA589100 - JP 2018138019-A/161026: Polycomb-Associated Non-Coding RNAs.
MA589098 - JP 2018138019-A/161024: Polycomb-Associated Non-Coding RNAs.
MA589096 - JP 2018138019-A/161022: Polycomb-Associated Non-Coding RNAs.
MA589095 - JP 2018138019-A/161021: Polycomb-Associated Non-Coding RNAs.
MA589094 - JP 2018138019-A/161020: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_gpcrPathway - Signaling Pathway from G-Protein Families
h_ndkDynaminPathway - Endocytotic role of NDK, Phosphins and Dynamin
h_calcineurinPathway - Effects of calcineurin in Keratinocyte Differentiation
h_nos1Pathway - Nitric Oxide Signaling Pathway
h_vipPathway - Neuropeptides VIP and PACAP inhibit the apoptosis of activated T cells
h_fcer1Pathway - Fc Epsilon Receptor I Signaling in Mast Cells
h_hdacPathway - Control of skeletal myogenesis by HDAC & calcium/calmodulin-dependent kinase (CaMK)
h_mef2dPathway - Role of MEF2D in T-cell Apoptosis
h_nfatPathway - NFAT and Hypertrophy of the heart (Transcription in the broken heart)
h_tcrPathway - T Cell Receptor Signaling Pathway
h_bcrPathway - BCR Signaling Pathway
h_fMLPpathway - fMLP induced chemokine gene expression in HMC-1 cells
h_pgc1aPathway - Regulation of PGC-1a
h_ck1Pathway - Regulation of ck1/cdk5 by type 1 glutamate receptors

-  Other Names for This Gene
  Alternate Gene Symbols: CYR61 , D3DT19, ENST00000451137.1, ENST00000451137.2, ENST00000451137.3, ENST00000451137.4, ENST00000451137.5, ENST00000451137.6, hCG_23652 , NM_001554, Q6FI18, Q6FI18_HUMAN, uc320sne.1, uc320sne.2
UCSC ID: ENST00000451137.7_4
RefSeq Accession: NM_001554.5
Protein: Q6FI18

-  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.