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[193424_at] nicotinic acetylcholine receptor

Description C31H5.3 /REP_DB=WormBase Gene ID /WP=CE17483 /GEN=acr-19 /TR=O62083 /GB=CAB07843.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
Cluster 6grp_total > 12      4grp_total > 47      6grp_cgc > 43      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 302
1 2 3 4 range
A 342.8
(3)
P 		105.9
(-2.7)
A 		91.3
(-3)
A 		142.4
(-1.8)
P 		252
B 341
(3)
P 		112.2
(-1.9)
A 		60.1
(-3)
A 		109.9
(-1.9)
A 		281
C 362.5
(3)
P 		115.5
(-2.3)
A 		85
(-3)
A 		111.7
(-2.4)
A 		278
avr 348.8
(3) 		111.2
(-2.3) 		78.8
(-3) 		121.3
(-2.1) 		270

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 334
1 2 3 4 5 6 range
A 231.8
(1.8)
P 		273.2
(3)
P 		201
(0.9)
P 		146.5
(-0.7)
P 		123.5
(-1.3)
P 		65.9
(-3)
A 		207
B 239.5
(0)
P 		396.4
(3)
P 		233.3
(-0.1)
P 		123.7
(-2.2)
M 		115.1
(-2.3)
A 		79.2
(-3)
A 		317
C 163.5
(-0)
P 		267.4
(3)
P 		105
(-1.8)
P 		170.4
(0.2)
P 		103.4
(-1.8)
M 		62.4
(-3)
A 		205
avr 211.6
(0.5) 		312.3
(3) 		179.8
(-0.3) 		146.9
(-1.1) 		114
(-1.9) 		69.2
(-3) 		243
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 111
1 2 3 4 range
A 124.8
(3)
P 		23
(-2.9)
A 		23.9
(-2.8)
A 		20.8
(-3)
P 		104
B 108.7
(3)
P 		27.7
(-2.1)
A 		13.9
(-3)
A 		23.4
(-2.4)
A 		95
C 120
(3)
P 		33.2
(-2.1)
A 		29.6
(-2.4)
A 		18.8
(-3)
A 		101
avr 117.8
(3) 		28
(-2.6) 		22.5
(-2.9) 		21
(-3) 		97

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 116
1 2 3 4 5 6 range
A 42.7
(-1)
P 		97.2
(3)
P 		43.8
(-0.9)
P 		37.2
(-1.4)
P 		37.3
(-1.4)
P 		16
(-3)
A 		81
B 83.3
(0.1)
P 		132
(3)
P 		56.7
(-1.4)
P 		32.8
(-2.8)
M 		46.8
(-2)
A 		29.5
(-3)
A 		103
C 60.6
(0.9)
P 		81.6
(3)
P 		26.7
(-2.4)
P 		34.3
(-1.7)
P 		33.4
(-1.8)
M 		20.9
(-3)
A 		61
avr 62.2
(-0) 		103.6
(3) 		42.4
(-1.5) 		34.8
(-2.1) 		39.2
(-1.7) 		22.1
(-3) 		82
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193424_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.1923
Sequence Type Exemplar sequence
Representative Public ID C31H5.3 NCBI
Target Description C31H5.3 /REP_DB=WormBase Gene ID /WP=CE17483 /GEN=acr-19 /TR=O62083 /GB=CAB07843.1 /SUBMIT=HINXTON /CHR=1 /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
Cluster Evidence This cluster is supported by a Sanger Annotation.
Annotation Method Description
Annotation Description This probe set was annotated using the Matching Probes based pipeline to a RefSeq identifier using 1 transcript(s).
Annotation Grade This is a grade A annotation.
Annotation Transcript Cluster (# of Matching Probes) NM_060028(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_060028 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-19) (acr-19) mRNA, complete cds. 11/11 None
SNAP00000044187 ENSEMBL cdna:SNAP chromosome:CEL140:I:9039556:9041748:-1 11/11 None
GENEFINDER00000044196 ENSEMBL cdna:GeneFinder chromosome:CEL140:I:9039556:9047491:-1 11/11 None
C31H5.3 ENSEMBL cdna:known chromosome:CEL140:I:9039372:9044819:-1 gene:C31H5.3 11/11 None
Annotation Notes
There are no noteworthy cross hybridizing mRNAs found for this probe set.
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrI:9039486-9042067(-) 100.0 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor
Gene Symbol acr-19
Ensembl C31H5.3
Entrez Gene 191605 Entrez gene
SwissProt O62083 EMBL-EBI
WormBase CE30494 Wormbase
Functional Annotations
Ortholog
ID Title Organism
CANINE:1590844_AT similar to Neuronal acetylcholine receptor protein, alpha-7 subunit precursor cfa
CANINE_2:CFA.4753.1.A1_AT similar to Neuronal acetylcholine receptor protein, alpha-7 subunit precursor cfa
CANINE_2:CFAAFFX.16022.1.S1_S_AT similar to Neuronal acetylcholine receptor protein, alpha-7 subunit precursor cfa
DROSOPHILA_2:1641662_AT nicotinic Acetylcholine Receptor 34E dm
DROSGENOME1:144282_AT nicotinic Acetylcholine Receptor 34E dm
DROSGENOME1:144281_AT nicotinic Acetylcholine Receptor 34E dm
CHICKEN:GGA.4000.1.S1_AT cholinergic receptor, nicotinic, alpha polypeptide 7 gga
HG-U133_PLUS_2:210123_S_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U133A:210123_S_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-FOCUS:210123_S_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U133A_2:210123_S_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HU35KSUBD:RC_N54079_S_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HUGENEFL:X70297_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
U133_X3P:G1458119_3P_A_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U95AV2:39566_AT cholinergic receptor, nicotinic, alpha polypeptide 7 hs
U133_X3P:HS.207457.0.A1_3P_AT Cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U133_PLUS_2:236385_AT Cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U133B:236385_AT Cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U95D:69847_AT Cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U95D:80966_AT Cholinergic receptor, nicotinic, alpha polypeptide 7 hs
HG-U95B:47235_AT Cholinergic receptor, nicotinic, alpha polypeptide 7 hs
MG-U74AV2:101131_AT cholinergic receptor, nicotinic, alpha polypeptide 7 mm
MOE430A:1450299_AT cholinergic receptor, nicotinic, alpha polypeptide 7 mm
MOUSE430A_2:1450299_AT cholinergic receptor, nicotinic, alpha polypeptide 7 mm
MOUSE430_2:1450299_AT cholinergic receptor, nicotinic, alpha polypeptide 7 mm
MU11KSUBA:L37663_S_AT cholinergic receptor, nicotinic, alpha polypeptide 7 mm
RN-U34:L31619_G_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RG-U34A:L31619_G_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RN-U34:L31619_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RG-U34A:L31619_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RN-U34:S53987_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RG-U34A:S53987_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RAE230A:1387419_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
RAT230_2:1387419_AT cholinergic receptor, nicotinic, alpha polypeptide 7 rn
Gene Ontology
GO Biological Process (view graph)
ID Description Evidence Links
6810 transport inferred from electronic annotation QuickGO AmiGO
6811 ion transport inferred from electronic annotation QuickGO AmiGO
GO Cellular Component (view graph)
ID Description Evidence Links
16020 membrane inferred from electronic annotation QuickGO AmiGO
16021 integral to membrane inferred from electronic annotation QuickGO AmiGO
45211 postsynaptic membrane inferred from electronic annotation QuickGO AmiGO
GO Molecular Function (view graph)
ID Description Evidence Links
4889 nicotinic acetylcholine-activated cation-selective channel activity inferred from electronic annotation QuickGO AmiGO
5216 ion channel activity inferred from electronic annotation QuickGO AmiGO
5230 extracellular ligand-gated ion channel activity inferred from electronic annotation QuickGO AmiGO
30594 neurotransmitter receptor activity inferred from electronic annotation QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast CAB07843 Hypothetical protein C31H5.3 [Caenorhabditis elegans] ref|NP_492429.2| AcetylCholine Receptor family member (acr-19) [Caenorhabditis elegans] gb|AAR98636.1| acetylcholine receptor (63.2 kD) (acr-19) [Caenorhabditis elegans] 0.0
blast CAE67024 Hypothetical protein CBG12425 [Caenorhabditis briggsae] 0.0
blast AAS64703 CG32975-PB, isoform B [Drosophila melanogaster] ref|NP_995708.1| CG32975-PB, isoform B [Drosophila melanogaster] 1.0E-108
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.4E-45
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.5E-67
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.4E-45
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.4E-97
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 6.4E-45
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.4E-97
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_492429.2 4 231-253,260-282,292-314,529-551
C31H5.3 4 231-253,260-282,292-314,529-551
SNAP00000044187 4 153-175,182-204,214-236,451-473
GENEFINDER00000044196 5 95-114,361-383,390-412,422-444,659-681
Sequence
Target Sequence 
>C. ELEGANS:193424_AT
gaacgtcctgatgttcttgaactttctgtacatggagcacattatgcgtctgacaataaa
aaaaaacaacgtcaatacctaatagaagtggagagacatattctaacccgtccaaatgga
aatggacattcagcagttgataaagcagtgcatcttgacttatcaactggtaatccacac
tctgatgctaaaaaatcatcaccttctccaaaacgaacaagtgcttcaataatgggtatg
actggattgccaacaactcaaatgaatggagcattggattcttcaattaataaatatact
tgtacaaaagttacgcgtccactggaaaacggttcagcaacaataaatcacaaatcatca
cctcaaataaatccaatcaataacaataatatctataaatgtgcaaacaaccaaaagact
caattcgaagatcgtcattttcatcatattctgaatgagcttcgtgttatatcagctcgt
gtgagaaaagaagaagcaatgcatgcacttcaagctgattggatgtttgcaagtcgagtt
gtagatcgggtttgttttcttgctttttcagcatttctcttcatgtgcactgcta

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAACGTCCTGATGTTCTTGAACTTT 52 349 1066 Antisense
GGAGCACATTATGCGTCTGACAATA 162 519 1099 Antisense
GGAGAGACATATTCTAACCCGTCCA 112 519 1155 Antisense
AAGCAGTGCATCTTGACTTATCAAC 357 151 1208 Antisense
ACTGGTAATCCACACTCTGATGCTA 99 95 1231 Antisense
GCTAAAAAATCATCACCTTCTCCAA 477 301 1252 Antisense
GTACAAAAGTTACGCGTCCACTGGA 165 461 1367 Antisense
AAATCACAAATCATCACCTCAAATA 514 117 1410 Antisense
GCTTCGTGTTATATCAGCTCGTGTG 153 307 1524 Antisense
GTAGATCGGGTTTGTTTTCTTGCTT 410 455 1606 Antisense
GCATTTCTCTTCATGTGCACTGCTA 219 309 1636 Antisense
Sequence Source Affymetrix Proprietary Database