Cnih1 (cornichon family member 1) - Rat Genome Database

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Gene: Cnih1 (cornichon family member 1) Rattus norvegicus
Analyze
Symbol: Cnih1
Name: cornichon family member 1
RGD ID: 1312030
Description: Predicted to enable signaling receptor binding activity. Predicted to be involved in vesicle-mediated transport. Predicted to be located in membrane. Orthologous to human CNIH1 (cornichon family member 1); INTERACTS WITH 17beta-estradiol; 2,6-dinitrotoluene; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Cnih; cornichon family AMPA receptor auxiliary protein 1; cornichon homolog; cornichon homolog (Drosophila); LOC289994
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
GRCr81522,517,755 - 22,529,651 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1522,497,340 - 22,529,578 (-)EnsemblGRCr8
mRatBN7.21520,037,885 - 20,049,857 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1520,037,885 - 20,049,761 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1522,818,743 - 22,830,501 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01523,776,737 - 23,788,495 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01522,026,991 - 22,038,763 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01523,568,568 - 23,580,342 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1523,568,555 - 23,580,395 (-)Ensemblrn6Rnor6.0
Rnor_5.01527,512,055 - 27,523,919 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41522,632,778 - 22,644,552 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1520,436,458 - 20,448,232 (-)NCBICelera
RGSC_v3.11522,648,394 - 22,661,879 (-)NCBI
Cytogenetic Map15p14NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
membrane  (IEA)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
2. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932  


Genomics

Comparative Map Data
Cnih1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81522,517,755 - 22,529,651 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1522,497,340 - 22,529,578 (-)EnsemblGRCr8
mRatBN7.21520,037,885 - 20,049,857 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1520,037,885 - 20,049,761 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1522,818,743 - 22,830,501 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01523,776,737 - 23,788,495 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01522,026,991 - 22,038,763 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01523,568,568 - 23,580,342 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1523,568,555 - 23,580,395 (-)Ensemblrn6Rnor6.0
Rnor_5.01527,512,055 - 27,523,919 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41522,632,778 - 22,644,552 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1520,436,458 - 20,448,232 (-)NCBICelera
RGSC_v3.11522,648,394 - 22,661,879 (-)NCBI
Cytogenetic Map15p14NCBI
CNIH1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381454,423,561 - 54,441,374 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1454,423,561 - 54,441,439 (-)Ensemblhg38GRCh38
GRCh371454,890,279 - 54,908,092 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361453,963,397 - 53,977,898 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341453,963,396 - 53,977,898NCBI
Celera1434,943,177 - 34,957,678 (-)NCBICelera
Cytogenetic Map14q22.2NCBI
HuRef1435,056,291 - 35,070,792 (-)NCBIHuRef
CHM1_11454,832,348 - 54,846,849 (-)NCBICHM1_1
T2T-CHM13v2.01448,628,725 - 48,646,539 (-)NCBIT2T-CHM13v2.0
Cnih1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391447,013,024 - 47,025,814 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1447,013,024 - 47,025,868 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm381446,775,567 - 46,788,357 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1446,775,567 - 46,788,411 (-)Ensemblmm10GRCm38
MGSCv371447,395,242 - 47,408,032 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361445,697,547 - 45,710,215 (-)NCBIMGSCv36mm8
Celera1442,940,276 - 42,953,058 (-)NCBICelera
Cytogenetic Map14C1NCBI
cM Map1424.29NCBI
Cnih1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554099,001,746 - 9,013,458 (+)Ensembl
ChiLan1.0NW_0049554099,001,748 - 9,013,458 (+)NCBIChiLan1.0ChiLan1.0
CNIH1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21555,545,068 - 55,563,278 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11454,761,578 - 54,779,611 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01435,010,429 - 35,028,404 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11453,292,161 - 53,306,715 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1453,292,161 - 53,306,715 (-)EnsemblpanPan2panpan1.1
CNIH1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1830,365,010 - 30,379,356 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl830,359,499 - 30,408,357 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha830,133,505 - 30,147,938 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0830,621,965 - 30,636,480 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl830,616,533 - 30,636,561 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1830,225,997 - 30,240,670 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0830,302,402 - 30,317,060 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0830,668,122 - 30,682,623 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Cnih1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440864074,878,388 - 74,894,845 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936697652,568 - 668,998 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936697652,562 - 668,998 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CNIH1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1183,810,849 - 183,829,207 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.11183,811,232 - 183,829,219 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CNIH1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12431,585,555 - 31,600,647 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2431,582,259 - 31,600,529 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366605319,819,370 - 19,834,363 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Cnih1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462473114,820,978 - 14,833,628 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462473114,821,185 - 14,833,737 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Cnih1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11276,265,130 - 76,276,943 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Cnih1
95 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:108
Count of miRNA genes:91
Interacting mature miRNAs:101
Transcripts:ENSRNOT00000013331
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
1641913Colcr2Colorectal carcinoma resistance QTL 26.570.0197intestine integrity trait (VT:0010554)poorly differentiated malignant colorectal tumor number (CMO:0002076)15231575947315759Rat
61424Scl1Serum cholesterol level QTL 17.70.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)151915576287086765Rat
10401805Kidm51Kidney mass QTL 51kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)15278592347785923Rat
5684946Bss98Bone structure and strength QTL 983.90.0026tibia strength trait (VT:1000284)tibia ultimate force (CMO:0001734)15139411584Rat
1354657Despr13Despair related QTL 130.0022locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)15132342855Rat
2317750Glom26Glomerulus QTL 264.3urine protein amount (VT:0005160)urine protein level (CMO:0000591)151492659471614418Rat
1641887Alcrsp14Alcohol response QTL 14response to alcohol trait (VT:0010489)brain neurotensin receptor 1 density (CMO:0002068)15144836456Rat
631550Bw7Body weight QTL 73.6body mass (VT:0001259)body weight (CMO:0000012)152233635167336351Rat
738017Hcas7Hepatocarcinoma susceptibility QTL 72.91liver integrity trait (VT:0010547)liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)15231575953331089Rat
5685002Bss103Bone structure and strength QTL 1032.8tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)151691152132439851Rat
2324620Coatc3Coat color QTL 3coat/hair pigmentation trait (VT:0010463)pigmented coat/hair area to total coat/hair area ratio (CMO:0001810)152233635152597086Rat

Markers in Region
RH143706  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21520,038,296 - 20,038,490 (+)MAPPERmRatBN7.2
Rnor_6.01523,568,887 - 23,569,080NCBIRnor6.0
Rnor_5.01527,512,374 - 27,512,567UniSTSRnor5.0
RGSC_v3.41522,633,097 - 22,633,290UniSTSRGSC3.4
Celera1520,436,777 - 20,436,970UniSTS
RH 3.4 Map15189.9UniSTS
Cytogenetic Map15p14UniSTS


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
16 12 67 165 91 90 59 92 59 6 356 192 11 144 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000013331   ⟹   ENSRNOP00000013331
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1523,568,570 - 23,580,342 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000085767   ⟹   ENSRNOP00000071661
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1522,517,757 - 22,529,578 (-)Ensembl
mRatBN7.2 Ensembl1520,037,885 - 20,049,761 (-)Ensembl
Rnor_6.0 Ensembl1523,568,555 - 23,580,395 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000160710   ⟹   ENSRNOP00000102788
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1522,517,757 - 22,529,578 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000170343   ⟹   ENSRNOP00000107013
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1522,497,340 - 22,529,578 (-)Ensembl
RefSeq Acc Id: NM_001106029   ⟹   NP_001099499
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,517,755 - 22,529,529 (-)NCBI
mRatBN7.21520,037,978 - 20,049,752 (-)NCBI
Rnor_6.01523,568,568 - 23,580,342 (-)NCBI
Rnor_5.01527,512,055 - 27,523,919 (-)NCBI
RGSC_v3.41522,632,778 - 22,644,552 (-)RGD
Celera1520,436,458 - 20,448,232 (-)RGD
Sequence:
RefSeq Acc Id: XM_039093098   ⟹   XP_038949026
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81522,517,755 - 22,529,651 (-)NCBI
mRatBN7.21520,037,885 - 20,049,857 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001099499 (Get FASTA)   NCBI Sequence Viewer  
  XP_038949026 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI58748 (Get FASTA)   NCBI Sequence Viewer  
  EDL88329 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000071661
  ENSRNOP00000071661.1
  ENSRNOP00000102788
  ENSRNOP00000102788.1
  ENSRNOP00000107013.1
RefSeq Acc Id: NP_001099499   ⟸   NM_001106029
- UniProtKB: B0BNA6 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000071661   ⟸   ENSRNOT00000085767
Ensembl Acc Id: ENSRNOP00000013331   ⟸   ENSRNOT00000013331
RefSeq Acc Id: XP_038949026   ⟸   XM_039093098
- Peptide Label: isoform X1
- UniProtKB: A0A0G2K112 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000102788   ⟸   ENSRNOT00000160710
Ensembl Acc Id: ENSRNOP00000107013   ⟸   ENSRNOT00000170343

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2K112-F1-model_v2 AlphaFold A0A0G2K112 1-160 view protein structure

Transcriptome

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

Promoters
RGD ID:13699604
Promoter ID:EPDNEW_R10128
Type:multiple initiation site
Name:Cnih1_1
Description:cornichon family AMPA receptor auxiliary protein 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01523,580,356 - 23,580,416EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1312030 AgrOrtholog
BioCyc Gene G2FUF-14172 BioCyc
Ensembl Genes ENSRNOG00000009811 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000085767 ENTREZGENE
  ENSRNOT00000085767.3 UniProtKB/TrEMBL
  ENSRNOT00000160710 ENTREZGENE
  ENSRNOT00000160710.1 UniProtKB/TrEMBL
  ENSRNOT00000170343.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:9101224 IMAGE-MGC_LOAD
InterPro Cornichon UniProtKB/TrEMBL
  Cornichon_conserved UniProtKB/TrEMBL
KEGG Report rno:289994 UniProtKB/TrEMBL
MGC_CLONE MGC:187928 IMAGE-MGC_LOAD
NCBI Gene 289994 ENTREZGENE
PANTHER CORNICHON-RELATED UniProtKB/TrEMBL
Pfam Cornichon UniProtKB/TrEMBL
PhenoGen Cnih1 PhenoGen
PROSITE CORNICHON UniProtKB/TrEMBL
RatGTEx ENSRNOG00000009811 RatGTEx
SMART Cornichon UniProtKB/TrEMBL
UniProt A0A0G2K112 ENTREZGENE, UniProtKB/TrEMBL
  A0ABK0L9K1_RAT UniProtKB/TrEMBL
  A0ABK0LHJ2_RAT UniProtKB/TrEMBL
  B0BNA6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2024-03-08 Cnih1  cornichon family member 1  Cnih1  cornichon family AMPA receptor auxiliary protein 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-09-12 Cnih1  cornichon family AMPA receptor auxiliary protein 1  Cnih  cornichon homolog (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Cnih  cornichon homolog (Drosophila)   Cnih_predicted  cornichon homolog (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Cnih_predicted  cornichon homolog (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED