Ccn6 (cellular communication network factor 6) - Rat Genome Database

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Gene: Ccn6 (cellular communication network factor 6) Mus musculus
Analyze
Symbol: Ccn6
Name: cellular communication network factor 6
RGD ID: 1622848
MGI Page MGI
Description: Predicted to enable heparin binding activity and integrin binding activity. Predicted to be involved in several processes, including positive regulation of cell differentiation; regulation of mitochondrial membrane potential; and regulation of reactive oxygen species biosynthetic process. Predicted to act upstream of or within negative regulation of angiogenesis and negative regulation of cell population proliferation. Predicted to be located in mitochondrion. Predicted to be active in extracellular matrix and extracellular space. Is expressed in embryo. Used to study breast metaplastic carcinoma and progressive pseudorheumatoid arthropathy of childhood. Human ortholog(s) of this gene implicated in arthropathy and progressive pseudorheumatoid arthropathy of childhood. Orthologous to human CCN6 (cellular communication network factor 6).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CCN; CCN family member 6; ENSMUSG00000062074; Gm735; Wi; WISP-3; Wisp3; WNT1 inducible signaling pathway protein 3; WNT1-inducible-signaling pathway protein 3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391039,026,966 - 39,049,484 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1039,026,966 - 39,039,790 (-)EnsemblGRCm39 Ensembl
GRCm381039,150,970 - 39,174,376 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1039,150,970 - 39,163,794 (-)EnsemblGRCm38mm10GRCm38
MGSCv371038,870,777 - 38,883,600 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361038,930,930 - 38,943,587 (-)NCBIMGSCv36mm8
Celera1040,035,173 - 40,048,005 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1020.19NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
2. Mouse MP Annotation Import Pipeline RGD automated import pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:15601861   PMID:18597638   PMID:19185060   PMID:20637190   PMID:21873635   PMID:21921419   PMID:24040393   PMID:27819674   PMID:29920361   PMID:34518881  


Genomics

Comparative Map Data
Ccn6
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391039,026,966 - 39,049,484 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1039,026,966 - 39,039,790 (-)EnsemblGRCm39 Ensembl
GRCm381039,150,970 - 39,174,376 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1039,150,970 - 39,163,794 (-)EnsemblGRCm38mm10GRCm38
MGSCv371038,870,777 - 38,883,600 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361038,930,930 - 38,943,587 (-)NCBIMGSCv36mm8
Celera1040,035,173 - 40,048,005 (-)NCBICelera
Cytogenetic Map10B1NCBI
cM Map1020.19NCBI
CCN6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh386112,052,813 - 112,069,686 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl6112,054,075 - 112,069,686 (+)EnsemblGRCh38hg38GRCh38
GRCh376112,375,307 - 112,390,889 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 366112,481,971 - 112,497,582 (+)NCBINCBI36Build 36hg18NCBI36
Build 346112,482,063 - 112,497,578NCBI
Celera6113,116,562 - 113,132,191 (+)NCBICelera
Cytogenetic Map6q21NCBI
HuRef6109,950,089 - 109,965,718 (+)NCBIHuRef
CHM1_16112,637,620 - 112,653,229 (+)NCBICHM1_1
T2T-CHM13v2.06113,236,232 - 113,253,104 (+)NCBIT2T-CHM13v2.0
Ccn6
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82044,123,932 - 44,139,745 (-)NCBIGRCr8
mRatBN7.22042,569,309 - 42,585,126 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2042,569,309 - 42,585,126 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx2044,318,205 - 44,334,184 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.02043,977,415 - 43,993,392 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.02044,710,380 - 44,726,274 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.02044,237,491 - 44,255,064 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2044,237,491 - 44,255,064 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02045,964,515 - 45,980,204 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42043,297,076 - 43,312,790 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2043,285,682 - 43,301,319 (-)NCBICelera
Cytogenetic Map20q12NCBI
Ccn6
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555264,502,654 - 4,522,259 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555264,501,331 - 4,525,866 (-)NCBIChiLan1.0ChiLan1.0
CCN6
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v25132,059,715 - 132,086,634 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan16129,947,929 - 129,973,902 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v06109,863,877 - 109,880,480 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.16113,939,882 - 113,955,433 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl6113,939,975 - 113,955,427 (+)Ensemblpanpan1.1panPan2
CCN6
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11268,488,846 - 68,499,104 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1268,478,905 - 68,498,049 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1268,299,647 - 68,317,878 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01269,362,873 - 69,381,112 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1269,361,014 - 69,380,055 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11268,722,395 - 68,740,609 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01268,560,032 - 68,578,123 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01268,886,687 - 68,905,127 (+)NCBIUU_Cfam_GSD_1.0
Ccn6
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404946103,519,416 - 103,534,951 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936679750,934 - 769,242 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936679751,664 - 767,126 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CCN6
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl178,005,847 - 78,019,709 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1178,005,442 - 78,020,595 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2187,626,572 - 87,687,187 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CCN6
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11361,786,246 - 61,806,010 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1361,786,312 - 61,803,610 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604034,121,867 - 34,138,513 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Ccn6
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462500748,593 - 50,771 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Ccn6
863 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:57
Count of miRNA genes:48
Interacting mature miRNAs:55
Transcripts:ENSMUST00000076713
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
39128215Lwq17_mliver weight QTL 17 (mouse)101270405184079784Mouse
1302160Mbis2_mMycobacterium bovis-induced systemic lupus erythematosus 2 (mouse)Not determined102028318556031223Mouse
1558865Lith21_mlithogenic gene 21 (mouse)Not determined10852500342525126Mouse
4141943W6q6_mweight 6 weeks QTL 6 (mouse)Not determined1270405184079784Mouse
27226772Tibl13_mtibia length 13, 10 week (mouse)1018875748129635869Mouse
1357656Hrtq3_mheart weight QTL 3 (mouse)Not determined101270405184079784Mouse
26884426Cvht1_mcranial vault height 1, 5 week (mouse)1024675898121035905Mouse
4142380W3q11_mweight 3 weeks QTL 11 (mouse)Not determined1270405184079784Mouse
1357825Kidpq2_mkidney weight percentage QTL 2 (mouse)Not determined101270405184079784Mouse
1301003Lmblgq4_mlimb length QTL 4 (mouse)Not determined102159119268091639Mouse
1301386Sysbp1_msystolic blood pressure 1 (mouse)Not determined101010826587401095Mouse
10045632Heal16_mwound healing/regeneration 16 (mouse)Not determined103097449964974630Mouse
1301129Alcp15_malcohol preference locus 15 (mouse)Not determined10989026443890391Mouse
10755518Chol16_mcholesterol 16 (mouse)101891504352915043Mouse
1301448Pas11_mpulmonary adenoma susceptibility 11 (mouse)Not determined10989026443890391Mouse
1302092Ath11_matherosclerosis 11 (mouse)Not determined10615194558693521Mouse
1302067Scc9_mcolon tumor susceptibility 9 (mouse)Not determined1018259333125575232Mouse
1357558Bmch4_mbone mechanical trait 4 (mouse)Not determined103157713665577284Mouse
1302133Alcp16_malcohol preference locus 16 (mouse)Not determined10989026443890391Mouse
26884403Cvht8_mcranial vault height 8, 16 week (mouse)102287589991035862Mouse
27095920Pglq9_mpelvic girdle length QTL 9, 10 week (mouse)103377599670835830Mouse
26884394Humsd3_mhumerus midshaft diameter 3, 10 week (mouse)102237589951076096Mouse
1300898Cfid_mcystic fibrosis intestinal distress (mouse)Not determined102972040363720483Mouse
1558757Eae34_mexperimental allergic encephalomyelitis susceptibility 34 (mouse)Not determined1021408154114217230Mouse
13208561Wght8_mweight 8 (mouse)10495000043875996Mouse
1357740Obsty3_mobesity 3 (mouse)Not determined108235478116190980Mouse
4141956Egq7_mearly growth QTL 7 (mouse)Not determined1270405184079784Mouse
1357864Scfpq1_msubcutaneous fat pad percentage QTL 1 (mouse)Not determined101270405184079784Mouse
4142209Psrs1_mpsoriasis susceptibility 1 (mouse)Not determined102689026446720483Mouse
4142272W10q5_mweight 10 weeks QTL 5 (mouse)Not determined1270405184079784Mouse

Markers in Region
Wisp3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10B1UniSTS
cM Map10 UniSTS
Wisp3  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map10B1UniSTS


Sequence


Ensembl Acc Id: ENSMUST00000076713   ⟹   ENSMUSP00000076003
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1039,026,966 - 39,039,790 (-)Ensembl
GRCm38.p6 Ensembl1039,150,970 - 39,163,794 (-)Ensembl
RefSeq Acc Id: NM_001127376   ⟹   NP_001120848
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391039,026,967 - 39,039,790 (-)NCBI
GRCm381039,150,971 - 39,163,794 (-)ENTREZGENE
MGSCv371038,870,777 - 38,883,600 (-)RGD
Celera1040,035,173 - 40,048,005 (-)RGD
cM Map10 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_030245127   ⟹   XP_030100987
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391039,026,966 - 39,049,484 (-)NCBI
GRCm381039,150,970 - 39,173,492 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036155821   ⟹   XP_036011714
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391039,026,966 - 39,049,484 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036155822   ⟹   XP_036011715
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391039,026,966 - 39,049,482 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001120848 (Get FASTA)   NCBI Sequence Viewer  
  XP_030100987 (Get FASTA)   NCBI Sequence Viewer  
  XP_036011714 (Get FASTA)   NCBI Sequence Viewer  
  XP_036011715 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3Z5L9 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000076003
  ENSMUSP00000076003.5
RefSeq Acc Id: NP_001120848   ⟸   NM_001127376
- Peptide Label: precursor
- UniProtKB: D3Z5L9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_030100987   ⟸   XM_030245127
- Peptide Label: isoform X1
- UniProtKB: D3Z5L9 (UniProtKB/Swiss-Prot)
Ensembl Acc Id: ENSMUSP00000076003   ⟸   ENSMUST00000076713
RefSeq Acc Id: XP_036011714   ⟸   XM_036155821
- Peptide Label: isoform X1
- UniProtKB: D3Z5L9 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_036011715   ⟸   XM_036155822
- Peptide Label: isoform X1
- UniProtKB: D3Z5L9 (UniProtKB/Swiss-Prot)
Protein Domains
CTCK   IGFBP N-terminal   TSP type-1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3Z5L9-F1-model_v2 AlphaFold D3Z5L9 1-354 view protein structure


Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2685581 AgrOrtholog
Ensembl Genes ENSMUSG00000062074 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000076713 ENTREZGENE
  ENSMUST00000076713.6 UniProtKB/Swiss-Prot
Gene3D-CATH 2.20.100.10 UniProtKB/Swiss-Prot
InterPro CCN UniProtKB/Swiss-Prot
  Cys_knot_C UniProtKB/Swiss-Prot
  Glyco_hormone_CN UniProtKB/Swiss-Prot
  Growth_fac_rcpt_cys_sf UniProtKB/Swiss-Prot
  IGFBP-like UniProtKB/Swiss-Prot
  IGFBP_CNN UniProtKB/Swiss-Prot
  Insulin_GF-bd_Cys-rich_CS UniProtKB/Swiss-Prot
  TSP1_CCN UniProtKB/Swiss-Prot
  TSP1_rpt UniProtKB/Swiss-Prot
  TSP1_rpt_sf UniProtKB/Swiss-Prot
KEGG Report mmu:327743 UniProtKB/Swiss-Prot
MGD MGI:2685581 ENTREZGENE
NCBI Gene 327743 ENTREZGENE
PANTHER CELLULAR COMMUNICATION NETWORK FACTOR 6 UniProtKB/Swiss-Prot
  CONNECTIVE TISSUE GROWTH FACTOR-RELATED UniProtKB/Swiss-Prot
Pfam Cys_knot UniProtKB/Swiss-Prot
  IGFBP UniProtKB/Swiss-Prot
  TSP1_CCN UniProtKB/Swiss-Prot
PhenoGen Ccn6 PhenoGen
PIRSF IGFBP_rP_CNN UniProtKB/Swiss-Prot
PROSITE CTCK_2 UniProtKB/Swiss-Prot
  IGFBP_N_1 UniProtKB/Swiss-Prot
  IGFBP_N_2 UniProtKB/Swiss-Prot
  TSP1 UniProtKB/Swiss-Prot
SMART SM00041 UniProtKB/Swiss-Prot
  SM00121 UniProtKB/Swiss-Prot
  TSP1 UniProtKB/Swiss-Prot
Superfamily-SCOP SSF57184 UniProtKB/Swiss-Prot
  SSF82895 UniProtKB/Swiss-Prot
UniProt CCN6_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2018-11-13 Ccn6  cellular communication network factor 6  Wisp3  WNT1 inducible signaling pathway protein 3  Symbol and/or name change 5135510 APPROVED