Chrna4 (cholinergic receptor nicotinic alpha 4 subunit) - Rat Genome Database

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Gene: Chrna4 (cholinergic receptor nicotinic alpha 4 subunit) Ictidomys tridecemlineatus
Analyze
Symbol: Chrna4
Name: cholinergic receptor nicotinic alpha 4 subunit
RGD ID: 12496930
Description: ENCODES a protein that exhibits acetylcholine binding (ortholog); acetylcholine receptor activity (ortholog); acetylcholine-gated monoatomic cation-selective channel activity (ortholog); INVOLVED IN acetylcholine receptor signaling pathway (ortholog); B cell activation (ortholog); behavioral response to nicotine (ortholog); PARTICIPATES IN acetylcholine signaling pathway via nicotinic acetylcholine receptor; alfentanil pharmacodynamics pathway; bupivacaine pharmacodynamics pathway; ASSOCIATED WITH Alzheimer's disease (ortholog); amyotrophic lateral sclerosis (ortholog); attention deficit hyperactivity disorder (ortholog); FOUND IN acetylcholine-gated channel complex (ortholog); cholinergic synapse (ortholog); dendrite (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: cholinergic receptor nicotinic alpha 4 subunit, transcript variant X1; cholinergic receptor nicotinic alpha 4 subunit, transcript variant X2; cholinergic receptor nicotinic alpha 4 subunit, transcript variant X3; neuronal acetylcholine receptor subunit alpha-4
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,227,250 - 195,242,216 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651410,680,859 - 10,695,865 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651410,680,893 - 10,695,859 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Pathway Annotations     Click to see Annotation Detail View
acetylcholine signaling pathway via nicotinic acetylcholine receptor  (ISO)
alfentanil pharmacodynamics pathway  (ISO)
bupivacaine pharmacodynamics pathway  (ISO)
buprenorphine pharmacodynamics pathway  (ISO)
chloroprocaine pharmacodynamics pathway  (ISO)
citalopram pharmacodynamics pathway  (ISO)
cocaine pharmacodynamics pathway  (ISO)
codeine and morphine pharmacodynamics pathway  (ISO)
desipramine pharmacodynamics pathway  (ISO)
diphenoxylate pharmacodynamics pathway  (ISO)
escitalopram pharmacodynamics pathway  (ISO)
ethylmorphine pharmacodynamics pathway  (ISO)
fentanyl pharmacodynamics pathway  (ISO)
fluoxetine pharmacodynamics pathway  (ISO)
heroin pharmacodynamics pathway  (ISO)
hydrocodone pharmacodynamics pathway  (ISO)
hydromorphone pharmacodynamics pathway  (ISO)
imipramine pharmacodynamics pathway  (ISO)
levacetylmethadol pharmacodynamics pathway  (ISO)
levobupivacaine phgarmacodynamics pathway  (ISO)
levorphanol pharmacodynamics pathway  (ISO)
lidocaine pharmacodynamics pathway  (ISO)
mepivacaine pharmacodynamics pathway  (ISO)
methadone pharmacodynamics pathway  (ISO)
nalbuphine pharmacodynamics pathway  (ISO)
naloxone pharmacodynamics pathway  (ISO)
naltrexone pharmacodynamics pathway  (ISO)
nicotine pharmacodynamics pathway  (ISO)
nicotine pharmacokinetics pathway  (ISO)
oxybuprocaine pharmacodynamics pathway  (ISO)
oxycodone pharmacodynamics pathway  (ISO)
oxymorphone pharmacodynamics pathway  (ISO)
pentazocine pharmacodynamics pathway  (ISO)
prilocaine pharmacodynamics pathway  (ISO)
procaine pharmacodynamics pathway  (ISO)
remifentanil pharmacodynamics pathway  (ISO)
ropivacaine pharmacodynamics pathway  (ISO)
tramadol pharmacodynamics pathway  (ISO)

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Chrna4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640195,227,250 - 195,242,216 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493651410,680,859 - 10,695,865 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493651410,680,893 - 10,695,859 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CHRNA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382063,343,223 - 63,361,349 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2063,343,223 - 63,378,401 (-)EnsemblGRCh38hg38GRCh38
GRCh372061,974,575 - 61,992,701 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 362061,445,109 - 61,463,192 (-)NCBINCBI36Build 36hg18NCBI36
Build 342061,446,464 - 61,463,192NCBI
Celera2058,652,104 - 58,670,128 (-)NCBICelera
Cytogenetic Map20q13.33NCBI
HuRef2058,700,254 - 58,717,202 (-)NCBIHuRef
CHM1_12061,875,694 - 61,893,903 (-)NCBICHM1_1
T2T-CHM13v2.02065,149,372 - 65,167,972 (-)NCBIT2T-CHM13v2.0
Chrna4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392180,664,104 - 180,685,339 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2180,660,173 - 180,685,339 (-)EnsemblGRCm39 Ensembl
GRCm382181,022,311 - 181,043,579 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2181,018,380 - 181,043,546 (-)EnsemblGRCm38mm10GRCm38
MGSCv372180,757,016 - 180,773,882 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362180,951,719 - 180,968,585 (-)NCBIMGSCv36mm8
Celera2185,108,778 - 185,125,645 (-)NCBICelera
Cytogenetic Map2H4NCBI
cM Map2103.54NCBI
Chrna4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83188,506,802 - 188,535,558 (-)NCBIGRCr8
mRatBN7.23168,136,246 - 168,157,839 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3168,136,266 - 168,156,957 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3172,520,220 - 172,537,355 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03181,479,311 - 181,496,446 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03178,140,859 - 178,157,919 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03176,533,182 - 176,547,965 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3176,527,516 - 176,548,208 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03180,243,234 - 180,258,017 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43170,171,214 - 170,185,998 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13170,077,249 - 170,092,033 (-)NCBI
Celera3164,428,976 - 164,443,759 (+)NCBICelera
RH 3.4 Map31564.7RGD
RH 3.4 Map31531.39RGD
Cytogenetic Map3q43NCBI
Chrna4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955528825,308 - 841,270 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955528825,314 - 840,994 (+)NCBIChiLan1.0ChiLan1.0
CHRNA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22169,134,670 - 69,153,450 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12069,126,676 - 69,145,454 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02059,730,759 - 59,748,678 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12061,267,958 - 61,284,640 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2061,270,631 - 61,283,005 (-)Ensemblpanpan1.1panPan2
CHRNA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12447,024,948 - 47,036,507 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2447,025,187 - 47,042,266 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2446,208,582 - 46,223,310 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02447,978,552 - 47,993,300 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2447,977,796 - 47,988,696 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12446,993,833 - 47,005,225 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02447,118,082 - 47,132,739 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02447,874,247 - 47,888,996 (-)NCBIUU_Cfam_GSD_1.0
CHRNA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1762,423,878 - 62,435,728 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11762,424,672 - 62,436,646 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CHRNA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12851,790 - 862,685 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605048,462,591 - 48,480,754 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Chrna4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474129,026,908 - 29,044,464 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474129,024,668 - 29,039,684 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSSTOT00000022057   ⟹   ENSSTOP00000014934
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_00493651410,680,859 - 10,695,865 (-)Ensembl
RefSeq Acc Id: XM_021726389   ⟹   XP_021582064
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640195,227,250 - 195,242,216 (-)NCBI
SpeTri2.0NW_00493651410,680,893 - 10,695,859 (-)NCBI
Sequence:
RefSeq Acc Id: XM_040275716   ⟹   XP_040131650
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640195,227,250 - 195,241,901 (-)NCBI
RefSeq Acc Id: XM_040275717   ⟹   XP_040131651
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024408640195,227,250 - 195,238,803 (-)NCBI
Protein Sequences
Protein RefSeqs XP_021582064 (Get FASTA)   NCBI Sequence Viewer  
  XP_040131650 (Get FASTA)   NCBI Sequence Viewer  
  XP_040131651 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000014934.2
GenBank Protein KAG3263661 (Get FASTA)   NCBI Sequence Viewer  
  KAG3263662 (Get FASTA)   NCBI Sequence Viewer  
  KAG3263663 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: XP_021582064   ⟸   XM_021726389
- Peptide Label: isoform X1
- UniProtKB: I3MS39 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_040131650   ⟸   XM_040275716
- Peptide Label: isoform X1
- UniProtKB: I3MS39 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_040131651   ⟸   XM_040275717
- Peptide Label: isoform X2
Ensembl Acc Id: ENSSTOP00000014934   ⟸   ENSSTOT00000022057
Protein Domains
Neurotransmitter-gated ion-channel ligand-binding   Neurotransmitter-gated ion-channel transmembrane


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000028017 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000022057.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.58.390 UniProtKB/TrEMBL
  2.70.170.10 UniProtKB/TrEMBL
InterPro Neur_chan_lig-bd UniProtKB/TrEMBL
  Neur_chan_lig-bd_sf UniProtKB/TrEMBL
  Neur_channel UniProtKB/TrEMBL
  Neuro-gated_channel_TM_sf UniProtKB/TrEMBL
  Neuro_actylchol_rec UniProtKB/TrEMBL
  Neurotrans-gated_channel_TM UniProtKB/TrEMBL
  Neurotransmitter_ion_chnl_CS UniProtKB/TrEMBL
  Nicotinic_acetylcholine_rcpt UniProtKB/TrEMBL
NCBI Gene Chrna4 ENTREZGENE
PANTHER NEURONAL ACETYLCHOLINE RECEPTOR SUBUNIT ALPHA-4 UniProtKB/TrEMBL
  PTHR18945 UniProtKB/TrEMBL
Pfam Neur_chan_LBD UniProtKB/TrEMBL
  Neur_chan_memb UniProtKB/TrEMBL
PRINTS NICOTINICR UniProtKB/TrEMBL
  NRIONCHANNEL UniProtKB/TrEMBL
PROSITE NEUROTR_ION_CHANNEL UniProtKB/TrEMBL
Superfamily-SCOP SSF63712 UniProtKB/TrEMBL
  SSF90112 UniProtKB/TrEMBL
UniProt I3MS39 ENTREZGENE, UniProtKB/TrEMBL