Cnih3 (cornichon family AMPA receptor auxiliary protein 3) - Rat Genome Database

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Gene: Cnih3 (cornichon family AMPA receptor auxiliary protein 3) Rattus norvegicus
Analyze
Symbol: Cnih3
Name: cornichon family AMPA receptor auxiliary protein 3
RGD ID: 1582859
Description: Enables channel regulator activity. Involved in regulation of AMPA receptor activity. Acts upstream of or within glutamatergic synaptic transmission and regulation of membrane potential. Located in dendritic shaft and postsynaptic membrane. Part of AMPA glutamate receptor complex. Orthologous to human CNIH3 (cornichon family AMPA receptor auxiliary protein 3); INTERACTS WITH bisphenol A; N,N-diethyl-m-toluamide; permethrin.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: CNIH-3; cornichon 3; cornichon homolog 3; cornichon homolog 3 (Drosophila); LOC690252; similar to Cornichon homolog 3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81395,548,440 - 95,739,500 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1395,598,998 - 95,772,064 (+)EnsemblGRCr8
mRatBN7.21393,016,707 - 93,208,168 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,099,784 - 93,208,121 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1395,605,884 - 95,712,461 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01397,005,785 - 97,112,352 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01394,181,457 - 94,294,541 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01399,663,150 - 99,770,625 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,663,150 - 99,770,625 (+)Ensemblrn6Rnor6.0
Rnor_5.013104,655,193 - 104,761,214 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41397,393,880 - 97,500,221 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1392,640,939 - 92,747,507 (+)NCBICelera
Cytogenetic Map13q26NCBI
JBrowse:




Disease 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. 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.
2. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
4. Functional proteomics identify cornichon proteins as auxiliary subunits of AMPA receptors. Schwenk J, etal., Science. 2009 Mar 6;323(5919):1313-9. doi: 10.1126/science.1167852.
Additional References at PubMed
PMID:20805473   PMID:23522044   PMID:25186755   PMID:31806817  


Genomics

Comparative Map Data
Cnih3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81395,548,440 - 95,739,500 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1395,598,998 - 95,772,064 (+)EnsemblGRCr8
mRatBN7.21393,016,707 - 93,208,168 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1393,099,784 - 93,208,121 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1395,605,884 - 95,712,461 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01397,005,785 - 97,112,352 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01394,181,457 - 94,294,541 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01399,663,150 - 99,770,625 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1399,663,150 - 99,770,625 (+)Ensemblrn6Rnor6.0
Rnor_5.013104,655,193 - 104,761,214 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41397,393,880 - 97,500,221 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1392,640,939 - 92,747,507 (+)NCBICelera
Cytogenetic Map13q26NCBI
CNIH3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381224,434,640 - 224,740,554 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1224,434,660 - 224,740,559 (+)Ensemblhg38GRCh38
GRCh371224,622,342 - 224,928,256 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361222,870,802 - 222,994,872 (+)NCBIBuild 36Build 36hg18NCBI36
Build 341221,110,913 - 221,234,984NCBI
Celera1197,994,781 - 198,118,853 (+)NCBICelera
Cytogenetic Map1q42.12NCBI
HuRef1195,324,109 - 195,447,812 (+)NCBIHuRef
CHM1_11226,076,574 - 226,200,601 (+)NCBICHM1_1
T2T-CHM13v2.01223,623,489 - 223,929,352 (+)NCBIT2T-CHM13v2.0
Cnih3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391181,178,024 - 181,288,059 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1181,180,193 - 181,288,206 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381181,350,459 - 181,460,641 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1181,352,628 - 181,460,641 (+)Ensemblmm10GRCm38
MGSCv371183,282,759 - 183,390,772 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361183,189,303 - 183,296,584 (+)NCBIMGSCv36mm8
Celera1188,409,910 - 188,516,008 (+)NCBICelera
Cytogenetic Map1H4NCBI
cM Map184.53NCBI
Cnih3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955520815,239 - 842,715 (-)Ensembl
ChiLan1.0NW_004955520818,584 - 854,340 (-)NCBIChiLan1.0ChiLan1.0
CNIH3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2124,748,931 - 25,092,790 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1124,699,889 - 25,043,737 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01199,903,319 - 200,243,433 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11204,911,402 - 205,216,665 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1205,092,073 - 205,216,665 (+)EnsemblpanPan2panpan1.1
CNIH3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1739,754,148 - 39,846,436 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl739,755,782 - 39,847,158 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha739,224,881 - 39,328,023 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0739,577,310 - 39,680,379 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl739,589,451 - 39,680,461 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1739,418,322 - 39,521,258 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0739,424,940 - 39,528,528 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0739,694,607 - 39,797,666 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cnih3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934453,023,875 - 53,136,201 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365261,611,084 - 1,723,630 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365261,710,641 - 1,723,422 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNIH3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1012,819,576 - 12,960,992 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11012,756,266 - 12,961,615 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21015,281,663 - 15,386,527 (+)NCBISscrofa10.2Sscrofa10.2susScr3
CNIH3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1255,014,111 - 5,338,994 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl255,014,000 - 5,145,974 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660555,187,889 - 5,358,224 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cnih3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248356,599,661 - 6,643,301 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248356,599,726 - 6,646,615 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Cnih3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11059,702,664 - 59,809,983 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cnih3
1581 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:42
Interacting mature miRNAs:45
Transcripts:ENSRNOT00000036705
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7207885Glom27Glomerulus QTL 273.9kidney glomerulus integrity trait (VT:0010546)kidney crescentic glomeruli count to kidney normal glomeruli count ratio (CMO:0002139)1321120177109350286Rat
738027Lnnr6Liver neoplastic nodule remodeling QTL 63.3liver integrity trait (VT:0010547)liver remodeling tumorous lesion number (CMO:0001461)1365613454109350286Rat
7387280Uae43Urinary albumin excretion QTL 435.690.4174urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)1368983334109350286Rat
2293702Bss34Bone structure and strength QTL 344.610.0001femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)1367635937109350286Rat
1576318Schws5Schwannoma susceptibility QTL 50.0351nervous system integrity trait (VT:0010566)post-insult time to trigeminal nerve neurilemmoma formation (CMO:0002019)1364497900109350286Rat
1354621Rf47Renal function QTL 473.7kidney renin amount (VT:0010559)kidney renin level (CMO:0002166)1311081740103588154Rat
1354655Bp241Blood pressure QTL 2413.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1338975045103588154Rat
8655951Rf63Renal function QTL 6312.2blood urea nitrogen amount (VT:0005265)plasma urea nitrogen level (CMO:0000586)1371610804109350286Rat
4889606Gluco63Glucose level QTL 632.860.003blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)1383286150109350286Rat
8655959Pur32Proteinuria QTL 328.4urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)137298450699745408Rat
2293687Bss26Bone structure and strength QTL 264.60.0001femur morphology trait (VT:0000559)femur cross-sectional area (CMO:0001661)1367635937109350286Rat
12879475Bp400Blood pressure QTL 400arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1364375743109350286Rat
1354666Bp244Blood pressure QTL 2444.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)131103588154Rat
2293341Glom15Glomerulus QTL 159.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)1367635937109350286Rat


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
9 7 55 158 72 69 41 91 41 6 283 178 11 136 51 75 28 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000036705   ⟹   ENSRNOP00000035332
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1395,631,348 - 95,738,843 (+)Ensembl
mRatBN7.2 Ensembl1393,099,784 - 93,207,121 (+)Ensembl
Rnor_6.0 Ensembl1399,663,150 - 99,770,625 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000094141   ⟹   ENSRNOP00000079333
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1395,631,348 - 95,739,604 (+)Ensembl
mRatBN7.2 Ensembl1393,099,784 - 93,208,121 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000132652   ⟹   ENSRNOP00000108433
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1395,631,348 - 95,772,064 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000168474   ⟹   ENSRNOP00000099684
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1395,598,998 - 95,739,604 (+)Ensembl
RefSeq Acc Id: NM_001166578   ⟹   NP_001160050
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,631,469 - 95,739,500 (+)NCBI
mRatBN7.21393,099,737 - 93,207,778 (+)NCBI
Rnor_6.01399,663,150 - 99,770,625 (+)NCBI
Rnor_5.013104,655,193 - 104,761,214 (+)NCBI
RGSC_v3.41397,393,880 - 97,500,221 (+)RGD
Celera1392,640,939 - 92,747,507 (+)RGD
Sequence:
RefSeq Acc Id: XM_039091106   ⟹   XP_038947034
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,631,337 - 95,739,496 (+)NCBI
mRatBN7.21393,099,593 - 93,208,168 (+)NCBI
RefSeq Acc Id: XM_039091107   ⟹   XP_038947035
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,548,969 - 95,739,496 (+)NCBI
mRatBN7.21393,017,261 - 93,208,168 (+)NCBI
RefSeq Acc Id: XM_039091108   ⟹   XP_038947036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,548,443 - 95,739,496 (+)NCBI
mRatBN7.21393,016,707 - 93,208,168 (+)NCBI
RefSeq Acc Id: XM_063272624   ⟹   XP_063128694
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,549,662 - 95,739,496 (+)NCBI
RefSeq Acc Id: XM_063272625   ⟹   XP_063128695
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,592,796 - 95,739,496 (+)NCBI
RefSeq Acc Id: XM_063272626   ⟹   XP_063128696
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,549,662 - 95,739,496 (+)NCBI
RefSeq Acc Id: XM_063272627   ⟹   XP_063128697
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,549,662 - 95,739,496 (+)NCBI
RefSeq Acc Id: XM_063272628   ⟹   XP_063128698
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81395,548,440 - 95,739,496 (+)NCBI
RefSeq Acc Id: NP_001160050   ⟸   NM_001166578
- UniProtKB: D0Q0Y7 (UniProtKB/Swiss-Prot),   A6JGJ9 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000035332   ⟸   ENSRNOT00000036705
RefSeq Acc Id: XP_038947036   ⟸   XM_039091108
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947035   ⟸   XM_039091107
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038947034   ⟸   XM_039091106
- Peptide Label: isoform X2
- UniProtKB: A6JGJ9 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000079333   ⟸   ENSRNOT00000094141
RefSeq Acc Id: XP_063128698   ⟸   XM_063272628
- Peptide Label: isoform X4
RefSeq Acc Id: XP_063128694   ⟸   XM_063272624
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063128696   ⟸   XM_063272626
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063128697   ⟸   XM_063272627
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063128695   ⟸   XM_063272625
- Peptide Label: isoform X1
Ensembl Acc Id: ENSRNOP00000108433   ⟸   ENSRNOT00000132652
Ensembl Acc Id: ENSRNOP00000099684   ⟸   ENSRNOT00000168474

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D0Q0Y7-F1-model_v2 AlphaFold D0Q0Y7 1-160 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:1582859 AgrOrtholog
BioCyc Gene G2FUF-17094 BioCyc
Ensembl Genes ENSRNOG00000022724 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000094141 ENTREZGENE
  ENSRNOT00000168474 ENTREZGENE
InterPro Cornichon UniProtKB/Swiss-Prot
  Cornichon_conserved UniProtKB/Swiss-Prot
KEGG Report rno:690252 UniProtKB/Swiss-Prot
NCBI Gene 690252 ENTREZGENE
PANTHER CORNICHON-RELATED UniProtKB/Swiss-Prot
Pfam Cornichon UniProtKB/Swiss-Prot
PhenoGen Cnih3 PhenoGen
PROSITE CORNICHON UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000022724 RatGTEx
SMART Cornichon UniProtKB/Swiss-Prot
UniProt A0A8I5ZMS9_RAT UniProtKB/TrEMBL
  A0A8L2UL58_RAT UniProtKB/TrEMBL
  A0ABK0KY84_RAT UniProtKB/TrEMBL
  A0ABK0M0D4_RAT UniProtKB/TrEMBL
  A6JGJ9 ENTREZGENE, UniProtKB/TrEMBL
  CNIH3_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-09-16 Cnih3  cornichon family AMPA receptor auxiliary protein 3  Cnih3  cornichon homolog 3 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-07-08 Cnih3  cornichon homolog 3 (Drosophila)  LOC682727  similar to Cornichon homolog 3  Data merged from RGD:1595313 1643240 APPROVED
2008-03-06 Cnih3  cornichon homolog 3 (Drosophila)  LOC690252  similar to Cornichon homolog 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-20 LOC682727  similar to Cornichon homolog 3      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC690252  similar to Cornichon homolog 3      Symbol and Name status set to provisional 70820 PROVISIONAL