Cnga4 (cyclic nucleotide gated channel alpha 4) - Rat Genome Database

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Gene: Cnga4 (cyclic nucleotide gated channel alpha 4) Mus musculus
Analyze
Symbol: Cnga4
Name: cyclic nucleotide gated channel alpha 4
RGD ID: 733208
MGI Page MGI
Description: Predicted to enable cGMP binding activity; intracellularly cAMP-activated cation channel activity; and intracellularly cGMP-activated cation channel activity. Acts upstream of or within sensory perception of smell. Located in non-motile cilium membrane. Orthologous to human CNGA4 (cyclic nucleotide gated channel subunit alpha 4).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: CNG channel alpha-4; CNG-4; CNG4; cyclic nucleotide gated cation channel; cyclic nucleotide-gated cation channel alpha 4; cyclic nucleotide-gated cation channel alpha-4; cyclic nucleotide-gated channel alpha-4; MGC130316; OCNC2; olfactory cyclic nucleotide-gated channel; olfactory cyclic nucleotide-gated channel subunit 2
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
GRCm397105,049,247 - 105,057,981 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7105,053,775 - 105,057,949 (+)EnsemblGRCm39 Ensembl
GRCm387105,400,024 - 105,408,775 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7105,404,568 - 105,408,742 (+)EnsemblGRCm38mm10GRCm38
MGSCv377112,553,082 - 112,557,252 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367105,278,389 - 105,282,559 (+)NCBIMGSCv36mm8
Celera7105,676,665 - 105,680,835 (+)NCBICelera
Cytogenetic Map7E3NCBI
cM Map755.85NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
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. Cyclic nucleotide-gated ion channels. Kaupp UB and Seifert R, Physiol Rev. 2002 Jul;82(3):769-824.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. MGD IEA MGD IEA
5. Mouse MP Annotation Import Pipeline RGD automated import pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11739959   PMID:11764791   PMID:12432397   PMID:12466851   PMID:12477932   PMID:12649326   PMID:16141072   PMID:16141073  
PMID:16980309   PMID:21267068   PMID:21677750   PMID:21873635   PMID:22192355  


Genomics

Comparative Map Data
Cnga4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm397105,049,247 - 105,057,981 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl7105,053,775 - 105,057,949 (+)EnsemblGRCm39 Ensembl
GRCm387105,400,024 - 105,408,775 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl7105,404,568 - 105,408,742 (+)EnsemblGRCm38mm10GRCm38
MGSCv377112,553,082 - 112,557,252 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv367105,278,389 - 105,282,559 (+)NCBIMGSCv36mm8
Celera7105,676,665 - 105,680,835 (+)NCBICelera
Cytogenetic Map7E3NCBI
cM Map755.85NCBI
CNGA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38116,234,793 - 6,244,976 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl116,234,765 - 6,244,479 (+)EnsemblGRCh38hg38GRCh38
GRCh37116,260,319 - 6,265,709 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36116,216,910 - 6,222,235 (+)NCBINCBI36Build 36hg18NCBI36
Celera116,379,405 - 6,384,782 (+)NCBICelera
Cytogenetic Map11p15.4NCBI
HuRef115,920,393 - 5,925,778 (+)NCBIHuRef
CHM1_1116,259,550 - 6,264,935 (+)NCBICHM1_1
T2T-CHM13v2.0116,293,180 - 6,303,456 (+)NCBIT2T-CHM13v2.0
Cnga4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81169,134,332 - 169,168,317 (+)NCBIGRCr8
mRatBN7.21159,752,357 - 159,756,369 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1159,752,357 - 159,756,375 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1167,773,767 - 167,777,745 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01174,959,758 - 174,963,736 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01167,855,020 - 167,858,998 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01170,238,959 - 170,246,858 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1170,242,846 - 170,246,858 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01177,245,757 - 177,253,787 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41163,137,544 - 163,141,556 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11163,233,020 - 163,237,158 (+)NCBI
Celera1157,687,159 - 157,691,171 (+)NCBICelera
Cytogenetic Map1q32NCBI
Cnga4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541421,977,996 - 21,986,441 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541421,977,996 - 21,986,349 (+)NCBIChiLan1.0ChiLan1.0
CNGA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v298,673,844 - 8,686,515 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1118,637,699 - 8,647,964 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0116,368,768 - 6,378,976 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1116,051,091 - 6,061,550 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl116,051,091 - 6,061,550 (+)Ensemblpanpan1.1panPan2
CNGA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12129,575,140 - 29,581,721 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2129,575,578 - 29,580,616 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2129,273,213 - 29,293,243 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02130,397,346 - 30,417,377 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2130,402,030 - 30,407,489 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12129,722,659 - 29,738,374 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02129,884,350 - 29,904,367 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02130,078,976 - 30,098,988 (+)NCBIUU_Cfam_GSD_1.0
Cnga4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494756,360,294 - 56,369,005 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936842310,741 - 314,754 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936842310,741 - 314,754 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNGA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl93,431,340 - 3,442,426 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.193,430,995 - 3,438,411 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.294,133,006 - 4,138,939 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNGA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1158,581,702 - 58,592,733 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl158,582,175 - 58,588,376 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666038156,418,620 - 156,428,468 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cnga4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248177,719,332 - 7,737,336 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248177,716,951 - 7,732,177 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Cnga4
309 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:211
Count of miRNA genes:180
Interacting mature miRNAs:197
Transcripts:ENSMUST00000033187
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
1357460Vtbt4_mvertebral trabecular bone trait 4 (mouse)Not determined7101693381135693530Mouse
25314307Mlh1fc2_mMLH1 foci count 2 (mouse)76502999133501729Mouse
27226781Tibl3_mtibia length 3, 5 week (mouse)774849748122199223Mouse
27226778Femd11_mfemur midshaft diameter 11, 16 week (mouse)756949748134001729Mouse
1301781Capsq3_mcapsaicin sensitivity related QTL 3 (mouse)Not determined787143137119485380Mouse
14746989Manh62_mmandible shape 62 (mouse)775742528109742528Mouse
11039524Tbbr3_mTrypanosoma brucei brucei response 3 (mouse)7100750722134750843Mouse
27226769Tibl12_mtibia length 12, 10 week (mouse)787249208126499172Mouse
10043926Bw1n_mbody weight 1 in NSY (mouse)Not determined745161966118693530Mouse
27226765Tibl18_mtibia length 18, 16 week (mouse)781849748126499172Mouse
27226763Feml20_mfemur length 20, 16 week (mouse)785049208124199223Mouse
4142500Morq1_mmodifier of Rs1 QTL 1 (mouse)Not determined80551681114551791Mouse
1301647Elpt_melevated leptin (mouse)Not determined786500186120500329Mouse
13208555Lgth10_mbody length 10 (mouse)751649748125599172Mouse
26884408Bzwq13_mbi-zygomatic width QTL 13, 16 week (mouse)761749748121399223Mouse
1301937Skull10_mskull morphology 10 (mouse)Not determined791482996125483156Mouse
1300528Ssial3_msusceptibility to sialadenitis 3 (mouse)Not determined793391848127392041Mouse
1301566Adip3_madiposity 3 (mouse)Not determined775394215109394346Mouse
26884404Huml1_mhumerus length 1, 5 week (mouse)730199425108999207Mouse
26884398Humsd6_mhumerus midshaft diameter 6, 16 week (mouse)778649748136901729Mouse
1301158Eae4_msusceptibility to experimental allergic encephalomyelitis 4 (mouse)Not determined719147398141919804Mouse
10412199Sst2_msusceptibility to tuberculosis 2 (mouse)Not determined718728794119485380Mouse
27226790Feml15_mfemur length 15, 10 week (mouse)787249208126499172Mouse
13524850Asrq7_macoustic startle response 7 (mouse)798394974132394974Mouse
1302062Stheal6_msoft tissue heal 6 (mouse)Not determined787043932121044066Mouse
26884440Sklq4_mskull length QTL 4, 5 week (mouse)765249748126499172Mouse
27095903Scvln10_msacral vertebrae length 2, 10 week (mouse)781449748126499172Mouse
27226715Metcl3_mmetatarsal-calcaneal length 3, 5 week (mouse)767849748119499223Mouse
26884444Sklq8_mskull length QTL 8, 10 week (mouse)767849748124199223Mouse
25823170Hrsq7_mhost response to SARS QTL 7, log titer (mouse)754819589116822815Mouse
1301082Bbaa16_mB.burgdorferi-associated arthritis 16 (mouse)Not determined736280015116416877Mouse
10412110Cctq1_mcentral corneal thickness QTL 1 (mouse)Not determined780551681114551791Mouse
12792978Fbmd3_mfemoral bone mineral density 3, females only (mouse)77050288142367832Mouse
1301447Fembm3_mfemoral bone morphometry 3 (mouse)Not determined7100993261134993342Mouse
10412104Tons2_mtongue size 2 (mouse)Not determined799837716133837716Mouse
1301188Heal6_mwound healing/regeneration 6 (mouse)Not determined787043932121044066Mouse
4142312Nilac4_mnicotine induced locomotor activity 4 (mouse)Not determined7102485219136485380Mouse
26884418Bzwq7_mbi-zygomatic width QTL 7, 10 week (mouse)767849748105449207Mouse
10043973Obq29_mobesity QTL 29 (mouse)Not determined772263372106263372Mouse
27226751Femd5_mfemur midshaft diameter 5, 10 week (mouse)753249748143153737Mouse
27095933Ulnl3_mulna length 3, 5 week (mouse)773149748143153737Mouse
1301105Cfld4_mcystic fibrosis lung disease 4 (mouse)Not determined7101693381135693530Mouse
1300721Cfbw3_mcystic fibrosis body weight 3 (mouse)Not determined7101693381135693530Mouse
27095929Pglq8_mpelvic girdle length QTL 8, 10 week (mouse)787849208108099207Mouse
27226745Metcl9_mmetatarsal-calcaneal length 9, 10 week (mouse)774849748122199223Mouse
27095930Ulnl10_mulna length 10, 16 week (mouse)780849748126699172Mouse
27095923Pglq3_mpelvic girdle length QTL 3, 5 week (mouse)781249748124199223Mouse
27095916Scvln15_msacral vertebrae length 2, 16 week (mouse)761749748123699223Mouse
13464255Ifvrq2_minfluenza virus resistance QTL 2 (mouse)792500698106455693Mouse
1357664Nba3_mNew Zealand Black autoimmunity 3 (mouse)Not determined791482996125483156Mouse
1301478Eae26_msusceptibility to experimental allergic encephalomyelitis 26 (mouse)Not determined798164922132165010Mouse
26884451Sklq14_mskull length QTL 14, 16 week (mouse)767849748124999172Mouse
27095910Pglq13_mpelvic girdle length QTL 13, 16 week (mouse)773049748125699172Mouse
13463473Hbbcq4_mhemoglobin concentration QTL 4 (mouse)787043932121044066Mouse
11553869Stmm2b_mskin tumor modifier of MSM 2a (mouse)773725965107725965Mouse
27095907Scvln4_msacral vertebrae length 2, 5 week (mouse)769949748120499223Mouse
1301997Cia7_mcollagen induced arthritis QTL 7 (mouse)Not determined785365595112533819Mouse


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000033187   ⟹   ENSMUSP00000033187
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl7105,053,775 - 105,057,949 (+)Ensembl
GRCm38.p6 Ensembl7105,404,568 - 105,408,742 (+)Ensembl
Ensembl Acc Id: ENSMUST00000210344   ⟹   ENSMUSP00000147387
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl7105,053,829 - 105,057,317 (+)Ensembl
GRCm38.p6 Ensembl7105,404,622 - 105,408,110 (+)Ensembl
RefSeq Acc Id: NM_001033317   ⟹   NP_001028489
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397105,053,775 - 105,057,945 (+)NCBI
GRCm387105,404,568 - 105,408,738 (+)NCBI
MGSCv377112,553,082 - 112,557,252 (+)RGD
Celera7105,676,665 - 105,680,835 (+)RGD
cM Map7 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_017322183   ⟹   XP_017177672
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397105,049,247 - 105,057,981 (+)NCBI
GRCm387105,400,024 - 105,408,774 (+)NCBI
Sequence:
RefSeq Acc Id: XM_030242497   ⟹   XP_030098357
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm397105,049,247 - 105,057,981 (+)NCBI
GRCm387105,400,024 - 105,408,775 (+)NCBI
Sequence:
RefSeq Acc Id: NP_001028489   ⟸   NM_001033317
- UniProtKB: Q08EL1 (UniProtKB/Swiss-Prot),   Q3UW12 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017177672   ⟸   XM_017322183
- Peptide Label: isoform X1
- UniProtKB: Q08EL1 (UniProtKB/Swiss-Prot),   Q3UW12 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_030098357   ⟸   XM_030242497
- Peptide Label: isoform X2
Ensembl Acc Id: ENSMUSP00000147387   ⟸   ENSMUST00000210344
Ensembl Acc Id: ENSMUSP00000033187   ⟸   ENSMUST00000033187

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q3UW12-F1-model_v2 AlphaFold Q3UW12 1-575 view protein structure

Promoters
RGD ID:8665099
Promoter ID:EPDNEW_M10581
Type:initiation region
Name:Cnga4_1
Description:Mus musculus cyclic nucleotide gated channel alpha 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm387105,404,536 - 105,404,596EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2664099 AgrOrtholog
Ensembl Genes ENSMUSG00000030897 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000033187 ENTREZGENE
  ENSMUST00000033187.6 UniProtKB/Swiss-Prot
  ENSMUST00000210344 ENTREZGENE
  ENSMUST00000210344.2 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.287.70 UniProtKB/Swiss-Prot
  1.20.5.300 UniProtKB/Swiss-Prot
  2.60.120.10 UniProtKB/Swiss-Prot
  Helix hairpin bin UniProtKB/Swiss-Prot
InterPro CLZ_dom UniProtKB/Swiss-Prot
  CNG_Cation_Channel UniProtKB/Swiss-Prot
  cNMP-bd-like UniProtKB/Swiss-Prot
  cNMP-bd_CS UniProtKB/Swiss-Prot
  cNMP-bd_dom UniProtKB/Swiss-Prot
  Ion_trans_dom UniProtKB/Swiss-Prot
  RmlC-like_jellyroll UniProtKB/Swiss-Prot
KEGG Report mmu:233649 UniProtKB/Swiss-Prot
MGD MGI:2664099 ENTREZGENE
NCBI Gene 233649 ENTREZGENE
PANTHER CYCLIC NUCLEOTIDE-GATED CATION CHANNEL ALPHA-4 UniProtKB/Swiss-Prot
  CYCLIC NUCLEOTIDE-GATED CATION CHANNEL SUBUNIT A UniProtKB/Swiss-Prot
Pfam CLZ UniProtKB/Swiss-Prot
  cNMP_binding UniProtKB/Swiss-Prot
  Ion_trans UniProtKB/Swiss-Prot
PhenoGen Cnga4 PhenoGen
PROSITE CNMP_BINDING_1 UniProtKB/Swiss-Prot
  CNMP_BINDING_2 UniProtKB/Swiss-Prot
  CNMP_BINDING_3 UniProtKB/Swiss-Prot
SMART cNMP UniProtKB/Swiss-Prot
Superfamily-SCOP SSF51206 UniProtKB/Swiss-Prot
  Voltage-gated potassium channels UniProtKB/Swiss-Prot
UniProt CNGA4_MOUSE UniProtKB/Swiss-Prot
  Q08EL1 ENTREZGENE
  Q3UW12 ENTREZGENE
UniProt Secondary Q08EL1 UniProtKB/Swiss-Prot