CHRNA9 (cholinergic receptor nicotinic alpha 9 subunit)

Gene: CHRNA9 (cholinergic receptor nicotinic alpha 9 subunit) Chlorocebus sabaeus

Analyze

Symbol:

CHRNA9

Name:

cholinergic receptor nicotinic alpha 9 subunit

RGD ID:

18592040

Description:

ENCODES a protein that exhibits acetylcholine-gated monoatomic cation-selective channel activity (ortholog); transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential (ortholog); INVOLVED IN chemical synaptic transmission (ortholog); chemical synaptic transmission, postsynaptic (ortholog); detection of mechanical stimulus involved in sensory perception of sound (ortholog); PARTICIPATES IN acetylcholine signaling pathway via nicotinic acetylcholine receptor; ASSOCIATED WITH genetic disease (ortholog); Hyperglycinemia, Lactic Acidosis, and Seizures (ortholog); lung small cell carcinoma (ortholog); FOUND IN acetylcholine-gated channel complex (ortholog); cholinergic synapse (ortholog); postsynaptic specialization membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

neuronal acetylcholine receptor subunit alpha-9

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChlSab1.1 - Green Monkey 1.1 Assembly

Position:

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	27	9,952,344 - 9,979,638 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	27	9,953,115 - 9,971,811 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666047	56,318,015 - 56,338,505 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

Hyperglycinemia, Lactic Acidosis, and Seizures (ISO)

lung small cell carcinoma (ISO)

Neoplastic Cell Transformation (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chemical synaptic transmission (IEA,ISO)

chemical synaptic transmission, postsynaptic (ISO)

detection of mechanical stimulus involved in sensory perception of sound (IEA,ISO)

excitatory postsynaptic potential (IEA,ISO)

inner ear morphogenesis (IEA,ISO)

membrane depolarization (IEA)

monoatomic cation transmembrane transport (ISO)

monoatomic cation transport (IEA,ISO)

monoatomic ion transmembrane transport (IEA)

negative regulation of ERK1 and ERK2 cascade (ISO)

nervous system process (IEA)

positive regulation of cytosolic calcium ion concentration (IEA,ISO)

regulation of membrane potential (IEA)

regulation of postsynaptic membrane potential (IEA)

response to auditory stimulus (IEA)

signal transduction (IEA)

Cellular Component

acetylcholine-gated channel complex (IEA,ISO)

cholinergic synapse (ISO)

neuron projection (IEA)

plasma membrane (IEA)

postsynaptic membrane (IEA)

postsynaptic specialization membrane (ISO)

synapse (IEA)

Molecular Function

acetylcholine-gated monoatomic cation-selective channel activity (IEA,ISO)

protein binding (ISO)

transmembrane signaling receptor activity (IEA)

transmitter-gated monoatomic ion channel activity involved in regulation of postsynaptic membrane potential (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

acetylcholine signaling pathway via nicotinic acetylcholine receptor (ISO)

References

Additional References at PubMed

PMID:22301074	PMID:30032202

Genomics

Comparative Map Data

CHRNA9
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	27	9,952,344 - 9,979,638 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	27	9,953,115 - 9,971,811 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666047	56,318,015 - 56,338,505 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

CHRNA9
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	4	40,335,333 - 40,355,217 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	4	40,335,333 - 40,355,217 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	4	40,337,350 - 40,357,234 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	4	40,032,226 - 40,051,730 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	4	40,178,396 - 40,197,901	NCBI
Celera	4	40,778,936 - 40,798,410 (+)	NCBI		Celera
Cytogenetic Map	4	p14	NCBI
HuRef	4	39,659,308 - 39,679,373 (+)	NCBI		HuRef
CHM1_1	4	40,336,462 - 40,356,347 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	4	40,309,008 - 40,328,903 (+)	NCBI		T2T-CHM13v2.0

Chrna9
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	5	66,092,317 - 66,134,823 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	5	66,092,264 - 66,134,669 (+)	Ensembl		GRCm39 Ensembl
GRCm38	5	65,934,854 - 65,977,486 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	5	65,934,921 - 65,977,326 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	5	66,358,363 - 66,368,725 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	5	66,246,259 - 66,256,621 (+)	NCBI		MGSCv36	mm8
Celera	5	63,263,725 - 63,274,240 (+)	NCBI		Celera
Cytogenetic Map	5	C3.1	NCBI
cM Map	5	33.84	NCBI

Chrna9
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	14	42,588,948 - 42,595,669 (-)	NCBI		GRCr8
mRatBN7.2	14	42,235,218 - 42,241,939 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	42,235,226 - 42,242,192 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	14	42,589,138 - 42,595,865 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	43,889,187 - 43,895,914 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	42,369,041 - 42,375,781 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	43,883,450 - 43,890,171 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	43,883,458 - 43,890,171 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	43,670,525 - 43,677,246 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	44,906,566 - 44,913,821 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	14	44,908,960 - 44,916,212 (-)	NCBI
Celera	14	41,388,099 - 41,394,795 (-)	NCBI		Celera
Cytogenetic Map	14	p11	NCBI

Chrna9
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955443	7,148,604 - 7,157,824 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955443	7,148,604 - 7,157,824 (-)	NCBI	ChiLan1.0	ChiLan1.0

CHRNA9
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	3	40,513,841 - 40,536,734 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	4	40,705,676 - 40,728,580 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	4	34,654,043 - 34,675,984 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	4	40,509,475 - 40,528,869 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	4	40,509,475 - 40,528,869 (+)	Ensembl	panpan1.1		panPan2

CHRNA9
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	3	72,190,431 - 72,204,092 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	3	72,190,555 - 72,203,404 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	3	74,738,924 - 74,752,324 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	3	72,956,919 - 72,970,323 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	3	72,956,998 - 72,985,424 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	3	72,219,775 - 72,233,167 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	3	72,376,073 - 72,389,479 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	3	72,760,280 - 72,773,685 (-)	NCBI		UU_Cfam_GSD_1.0

Chrna9
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024405285	38,495,169 - 38,506,158 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936482	7,792,292 - 7,801,152 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936482	7,792,292 - 7,801,152 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CHRNA9
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	8	31,443,043 - 31,456,384 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	8	31,430,933 - 31,456,385 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	8	33,099,230 - 33,123,294 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

Chrna9
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624761	26,636,506 - 26,645,471 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624761	26,636,242 - 26,646,072 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

RNA-SEQ Expression

High: > 1000 TPM value Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM Below Cutoff: < 0.5 TPM

	endocrine system	hemolymphoid system	nervous system
High
Medium
Low	1	12	6
Below cutoff	35	6	48

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_008017590	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	JACDXN010000015	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCSAT00000015150 ⟹ ENSCSAP00000013098

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1 Ensembl	27	9,953,115 - 9,971,811 (-)	Ensembl

RefSeq Acc Id:

XM_008017590 ⟹ XP_008015781

Type:

CODING

Position:

Green Monkey Assembly	Chr	Position (strand)	Source
ChlSab1.1	27	9,952,344 - 9,979,638 (-)	NCBI
Vero_WHO_p1.0	NW_023666047	56,318,015 - 56,338,505 (-)	NCBI

Sequence:

show sequence

CTTTCTGTGGCTCTCCTGGATTTCTCTCGTTCAGCTCCTTGGTGTACAGAGCCTATGTCCATGG
CGATGGTGAGGGGGAAGCGGAAGACCACGCTGCCTGACCGAGACTTTATTATAGAGGCTCAGGA
AAAAGATGAACTGGTCCCATTCCTGCATCTCCTTTTGCTGGATTTACTTTGCTGCTTCCAGACT
GAGAGCTGTGGAGACGGCAGATGGAAAATATGCTCAGAAGTTGTTTAATGACCTTTTTGAAGAT
TATTCCAATGCTCTTCGTCCAGTGGAAGATACAGATAAAGTCCTGAATGTCACACTGCAGATTA
CGCTCTCTCAGATTAAGGATATGGATGAAAGAAACCAAATTCTGACCGCCTATTTGTGGATCCG
CCAAATCTGGCACGATGCCTATCTCACATGGGACCGAGATCAGTATGATGGCCTAGACTCCATC
AGGATCCCCAGTGACCTTGTGTGGAGGCCGGACATCGTCTTATATAACAAGGCTGATGATGAAT
CTTCAGAGCCTGTGAACACCAATGTGGTCCTGCGGTATGATGGGCTGATCACCTGGGATGCACC
GGCCATCACCAAAAGCTCCTGTGTGGTGGATGTCACCTACTTCCCTTTTGACAACCAGCAGTGC
AACCTGACTTTTGGTTCCTGGACCTACAATGGCAATCAGGTAGACATATTCAATGCCCTGGACA
GCGGAGATCTCTCTGACTTCATTGAAGATGTGGAATGGGAGGTCCATGGCATGCCTGCTGTGAA
GAATGTGATCTCCTATGGCTGCTGCTCTGAGCCTTACCCGGACGTCACATTCACCCTCCTTCTG
AAGAGAAGGTCCTCATTCTATATCGTCAACCTCCTCATCCCATGTGTCCTCATATCTTTTCTGG
CTCCTCTGAGTTTTTATCTCCCAGCAGCCTCTGGAGAAAAGGTCTCCCTGGGAGTGACCATCCT
GTTGGCCATGACTGTATTTCAACTAATGGTGGCAGAAATCATGCCGGCCTCAGAAAATGTCCCC
CTGATAGGTAAATACTACATAGCCACGATGGCCCTGATCACGGCCTCCACTGCCTTGACCATCA
TGGTGATGAATATCCACTTCTGTGGGGCCGAGGCCCGGCCGGTGCCGCACTGGGCCAGGGTGGT
CATCCTGAAATACATGTCCAGGGTCTTGTTTGTCTATGATGTGGGTGAAAACTGCCTCAGCCCG
CACCACAGTAGAGAGCGGGACCACCTCACGAAAGTTTATAGCCAACTCCCAGAATCTAACCTGA
AAACAGCCAGGAACAAAGACCTTTCCAGAAAGAAGGACATGAACAAACGCTTAAAGAACGACCT
GGGCTGCCAGGGTGAGAACCCTCAGGAGTCCGAGAGTTACTGTGCACAGTACAAAGTGCTGACG
AGGAATATTGAGTACATGGCCAAGTGCCTCAAAGACCACAAGGCCACCAATTCCAAAGGGAGTG
AATGGAAGAAGGTGGCGAAAGTCATAGACCGATTCTTCATGTGGATTTTGTTCATTATGGTGCT
TGTGATGACTATTTTGATCATAGCAAGAGCGGATTAGTCACAGATATTGGCTTTGCTATCTCGG
TAGAAATTAATACAATTCCCTGTGATCTATTCCAGTGTTCTTCCAAGATTTTTGTTCATCTATA
ATTTAGGGGTTATGTTGTCTGTACGTTTTATTTTTAACCTCAAATCAATGTCGAAGCTATCTGC
CCTGTCAAATTAAGCAGGAGATCCAAAATTTCAAGGGTAGGAAGATGGAAGAAATAGGGAAAGA
GACCTTTTATAGCCCACCATAGCGGTGGGTGACTGGCCTCTATACAATTATTCACCTCTTTGGC
AGTACAGATAACAAAATACACTTTACTGGTAAAATTTAAAACAAAAAGGCAAAACAAACCAAAC
TTGTTTTCCCCTTAGTTCCCCTTAAACCATACTTTAAAAAATGAAATAGTCATATATATGTTAA
TGTGATTTAAGTCTCAATGGTACCTTATTCAGGCATAGTGCATTTGAAGTGATATCTCAAATAG
TGGAATAAAAGGTATTGTCCCATGTGAAGAAAGTCTAAGCATCAGCTGTTTAATGGGGAAAGAG
CTTGCTTCATAATGGTGATGTTGTATATGTTGGTTATGTTTTATATAAACCCAAAAGATGAAGT
CATTCCTGCATTTACCCCTTGATTAAAATATGATAGATGAAGTTCTTCCTGTCTTGTATCAAAA
TAAGGTGATTAGCAAGCTGGGCTCATCCATTCATTCATTGAACTTTTCACCAAACATGGATCAC
ATTTTCCCTACATGTAATAAAAGCGACATGATTCACATTT

hide sequence

Protein Sequences


Protein RefSeqs	XP_008015781	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCSAP00000013098.1

RefSeq Acc Id:	XP_008015781 ⟸ XM_008017590
- UniProtKB:	A0A0D9RWV9 (UniProtKB/TrEMBL)

RefSeq Acc Id:

ENSCSAP00000013098 ⟸ ENSCSAT00000015150

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCSAG00000017058	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCSAT00000015150.1	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
KEGG Report	csab:103246186	UniProtKB/TrEMBL
NCBI Gene	CHRNA9	ENTREZGENE
PANTHER	NEURONAL ACETYLCHOLINE RECEPTOR SUBUNIT ALPHA-9	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	A0A0D9RWV9	ENTREZGENE, UniProtKB/TrEMBL

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations