Cngb3 (cyclic nucleotide gated channel subunit beta 3) - Rat Genome Database

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Gene: Cngb3 (cyclic nucleotide gated channel subunit beta 3) Rattus norvegicus
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Symbol: Cngb3
Name: cyclic nucleotide gated channel subunit beta 3
RGD ID: 1565364
Description: Predicted to enable cGMP binding activity; intracellularly cAMP-activated cation channel activity; and intracellularly cGMP-activated cation channel activity. Predicted to be involved in monoatomic cation transmembrane transport. Predicted to be part of intracellular cyclic nucleotide activated cation channel complex. Predicted to be active in photoreceptor outer segment and plasma membrane. Human ortholog(s) of this gene implicated in achromatopsia 3 and color blindness. Orthologous to human CNGB3 (cyclic nucleotide gated channel subunit beta 3); PARTICIPATES IN calcium transport pathway; calcium/calcium-mediated signaling pathway; visual phototransduction pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; lead diacetate.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Cng6; cyclic nucleotide gated channel beta 3; cyclic nucleotide-gated cation channel beta-3; LOC500418; RGD1565364; similar to cyclic nucleotide-gated channel subunit CNG6
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8537,543,903 - 37,792,030 (+)NCBIGRCr8
mRatBN7.2532,746,988 - 32,995,121 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl532,746,988 - 32,995,121 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx534,860,111 - 35,109,275 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0536,452,691 - 36,701,842 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0536,391,804 - 36,640,963 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0533,097,353 - 33,507,467 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl533,097,654 - 33,507,467 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0538,090,335 - 38,161,871 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0537,757,561 - 38,027,396 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4533,867,639 - 34,136,940 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera531,864,644 - 32,091,469 (+)NCBICelera
Cytogenetic Map5q13NCBI
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

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Calcium signalling remodelling and disease. Berridge MJ Biochem Soc Trans. 2012 Apr;40(2):297-309. doi: 10.1042/BST20110766.
2. Long-term and age-dependent restoration of visual function in a mouse model of CNGB3-associated achromatopsia following gene therapy. Carvalho LS, etal., Hum Mol Genet. 2011 Aug 15;20(16):3161-75. doi: 10.1093/hmg/ddr218. Epub 2011 May 15.
3. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
4. Cyclic nucleotide-gated ion channels. Kaupp UB and Seifert R, Physiol Rev. 2002 Jul;82(3):769-824.
5. Mutations in the CNGB3 gene encoding the beta-subunit of the cone photoreceptor cGMP-gated channel are responsible for achromatopsia (ACHM3) linked to chromosome 8q21. Kohl S, etal., Hum Mol Genet. 2000 Sep 1;9(14):2107-16.
6. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. Comprehensive gene review and curation RGD comprehensive gene curation
11. Achromatopsia: the CNGB3 p.T383fsX mutation results from a founder effect and is responsible for the visual phenotype in the original report of uniparental disomy 14. Wiszniewski W, etal., Hum Genet. 2007 May;121(3-4):433-9. Epub 2007 Jan 31.
Additional References at PubMed
PMID:10662822   PMID:15634774   PMID:24164424  


Genomics

Comparative Map Data
Cngb3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8537,543,903 - 37,792,030 (+)NCBIGRCr8
mRatBN7.2532,746,988 - 32,995,121 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl532,746,988 - 32,995,121 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx534,860,111 - 35,109,275 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0536,452,691 - 36,701,842 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0536,391,804 - 36,640,963 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0533,097,353 - 33,507,467 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl533,097,654 - 33,507,467 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0538,090,335 - 38,161,871 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0537,757,561 - 38,027,396 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4533,867,639 - 34,136,940 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera531,864,644 - 32,091,469 (+)NCBICelera
Cytogenetic Map5q13NCBI
CNGB3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38886,574,179 - 86,743,634 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl886,553,977 - 86,743,675 (-)EnsemblGRCh38hg38GRCh38
GRCh37887,586,407 - 87,755,862 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36887,655,277 - 87,825,017 (-)NCBINCBI36Build 36hg18NCBI36
Build 34887,655,278 - 87,825,017NCBI
Celera883,780,714 - 83,950,463 (-)NCBICelera
Cytogenetic Map8q21.3NCBI
HuRef882,795,582 - 82,965,151 (-)NCBIHuRef
CHM1_1887,627,665 - 87,797,926 (-)NCBICHM1_1
T2T-CHM13v2.0887,694,425 - 87,863,851 (-)NCBIT2T-CHM13v2.0
Cngb3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39419,280,850 - 19,510,623 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl419,280,850 - 19,510,623 (+)EnsemblGRCm39 Ensembl
GRCm38419,280,850 - 19,510,623 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl419,280,850 - 19,510,623 (+)EnsemblGRCm38mm10GRCm38
MGSCv37419,207,997 - 19,437,770 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36419,207,997 - 19,437,770 (+)NCBIMGSCv36mm8
Celera419,042,770 - 19,272,553 (+)NCBICelera
Cytogenetic Map4A3NCBI
cM Map47.42NCBI
Cngb3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554174,168,766 - 4,300,437 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554174,164,328 - 4,288,516 (-)NCBIChiLan1.0ChiLan1.0
CNGB3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27103,976,343 - 104,146,902 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1879,515,298 - 79,685,793 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0883,269,589 - 83,439,999 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1885,238,043 - 85,407,023 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl885,238,043 - 85,407,059 (-)Ensemblpanpan1.1panPan2
CNGB3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12932,744,946 - 32,992,715 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2932,749,389 - 32,893,077 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2932,904,962 - 33,048,456 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02932,900,394 - 33,163,070 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2932,904,840 - 33,048,604 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12932,947,981 - 33,091,326 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02932,973,137 - 33,116,009 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02933,393,790 - 33,536,962 (-)NCBIUU_Cfam_GSD_1.0
Cngb3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530346,487,382 - 46,625,809 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365441,166,508 - 1,305,457 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365441,166,896 - 1,305,339 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNGB3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl450,112,927 - 50,263,222 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1450,112,927 - 50,263,264 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2455,027,871 - 55,179,235 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNGB3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1881,757,567 - 81,911,256 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl881,759,642 - 81,909,760 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603959,040,485 - 59,192,743 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cngb3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247445,042,494 - 5,207,818 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247445,059,957 - 5,209,144 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cngb3
2299 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:94
Count of miRNA genes:75
Interacting mature miRNAs:78
Transcripts:ENSRNOT00000008087
Prediction methods:Microtar, Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)5894822853948228Rat
1578776Stresp18Stress response QTL 182.9thymus mass (VT:0004954)thymus wet weight (CMO:0000855)52795544072955440Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
6903306Scl35Serum cholesterol QTL 352.60.0073blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)52851548973515489Rat
70212Niddm25Non-insulin dependent diabetes mellitus QTL 253.54blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51131345958Rat
1358353Srcrtb2Stress Responsive Cort Basal QTL 23.480.003blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)51887394774251464Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5384401847869213Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)5982326699753708Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)512789751113558310Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)572947086724018Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5228222669540447Rat
2290448Scl54Serum cholesterol level QTL 542.93blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)531663789131345958Rat
6903292Stl28Serum triglyceride level QTL 282.60.0073blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)52851548973515489Rat
61462Niddm10Non-insulin dependent diabetes mellitus QTL 103.90.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)5511215947171491Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51268928557689285Rat
1578767Stresp17Stress response QTL 174.30.01blood aldosterone amount (VT:0005346)plasma aldosterone level (CMO:0000551)52795544072955440Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)5190450412Rat
8552954Pigfal14Plasma insulin-like growth factor 1 level QTL 149blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)52122674466226744Rat
1549901Neudeg2Neurodegradation QTL 240nervous system integrity trait (VT:0010566)mononuclear cell count (CMO:0002119)52483871044045280Rat
1600358Mamtr5Mammary tumor resistance QTL 5mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51887394763873947Rat

Markers in Region
D5Got281  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2532,980,187 - 32,980,360 (+)MAPPERmRatBN7.2
Rnor_6.0533,492,029 - 33,492,201NCBIRnor6.0
Rnor_5.0538,146,433 - 38,146,605UniSTSRnor5.0
RGSC_v3.4534,122,761 - 34,122,933UniSTSRGSC3.4
Celera532,076,539 - 32,076,707UniSTS
Cytogenetic Map5q13UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
ectoderm
endocrine system
endoderm
mesenchyme
nervous system
renal system
reproductive system
respiratory system
2 1 45 4 1 8 45 5 40 1

Sequence


Ensembl Acc Id: ENSRNOT00000008087   ⟹   ENSRNOP00000008087
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl532,746,988 - 32,995,121 (+)Ensembl
Rnor_6.0 Ensembl533,097,654 - 33,507,467 (+)Ensembl
RefSeq Acc Id: NM_001271238   ⟹   NP_001258167
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8537,543,903 - 37,792,030 (+)NCBI
mRatBN7.2532,746,988 - 32,995,121 (+)NCBI
Rnor_6.0533,097,654 - 33,507,467 (+)NCBI
Rnor_5.0538,090,335 - 38,161,871 (+)NCBI
Rnor_5.0537,757,561 - 38,027,396 (+)NCBI
Celera531,864,644 - 32,091,469 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001258167 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAS87324 (Get FASTA)   NCBI Sequence Viewer  
  EDL98494 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000008087.6
RefSeq Acc Id: NP_001258167   ⟸   NM_001271238
- UniProtKB: F1LX27 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000008087   ⟸   ENSRNOT00000008087
Protein Domains
Cyclic nucleotide-binding

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1LX27-F1-model_v2 AlphaFold F1LX27 1-690 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1565364 AgrOrtholog
BioCyc Gene G2FUF-41841 BioCyc
Ensembl Genes ENSRNOG00000006084 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000008087.7 UniProtKB/TrEMBL
Gene3D-CATH 1.10.287.70 UniProtKB/TrEMBL
  2.60.120.10 UniProtKB/TrEMBL
  Helix hairpin bin UniProtKB/TrEMBL
InterPro CNG_Cation_Channel UniProtKB/TrEMBL
  cNMP-bd-like UniProtKB/TrEMBL
  cNMP-bd_CS UniProtKB/TrEMBL
  cNMP-bd_dom UniProtKB/TrEMBL
  Ion_trans_dom UniProtKB/TrEMBL
  RmlC-like_jellyroll UniProtKB/TrEMBL
KEGG Report rno:500418 UniProtKB/TrEMBL
NCBI Gene 500418 ENTREZGENE
PANTHER CYCLIC NUCLEOTIDE-GATED CATION CHANNEL SUBUNIT A UniProtKB/TrEMBL
  PTHR45638:SF8 UniProtKB/TrEMBL
Pfam cNMP_binding UniProtKB/TrEMBL
  Ion_trans UniProtKB/TrEMBL
PhenoGen Cngb3 PhenoGen
PROSITE CNMP_BINDING_1 UniProtKB/TrEMBL
  CNMP_BINDING_2 UniProtKB/TrEMBL
  CNMP_BINDING_3 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000006084 RatGTEx
SMART cNMP UniProtKB/TrEMBL
Superfamily-SCOP SSF51206 UniProtKB/TrEMBL
  Voltage-gated potassium channels UniProtKB/TrEMBL
UniProt F1LX27 ENTREZGENE, UniProtKB/TrEMBL
  Q6Q2I5_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-07-02 Cngb3  cyclic nucleotide gated channel subunit beta 3  Cngb3  cyclic nucleotide gated channel beta 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Cngb3  cyclic nucleotide gated channel beta 3  RGD1565364_predicted  similar to cyclic nucleotide-gated channel subunit CNG6 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1565364_predicted  similar to cyclic nucleotide-gated channel subunit CNG6 (predicted)  LOC500418  similar to cyclic nucleotide-gated channel subunit CNG6  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500418  similar to cyclic nucleotide-gated channel subunit CNG6      Symbol and Name status set to provisional 70820 PROVISIONAL