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[193304_at] nicotinic acetylcholine receptor subunit

Description K11G12.7 /REP_DB=WormBase Gene ID /WP=CE28345 /GEN=acr-3 /GB=AAK71378.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor subunit
Cluster 6grp_total > 33      4grp_total > 21      6grp_cgc > 70      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 160
1 2 3 4 range
A 113.9
(0.7)
M 		56.6
(-2)
A 		36.3
(-3)
A 		162.9
(3)
P 		127
B 86.5
(2.9)
P 		87.5
(3)
P 		38.8
(-3)
A 		74.8
(1.4)
A 		49
C 106.1
(-0.3)
A 		41.8
(-2.7)
A 		34.4
(-3)
A 		193.9
(3)
P 		160
avr 102.2
(0.7) 		62
(-1.6) 		36.5
(-3) 		143.9
(3) 		107

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 60
1 2 3 4 5 6 range
A 79
(3)
A 		29.8
(-3)
P 		78.3
(2.9)
A 		57.6
(0.4)
A 		45.4
(-1.1)
A 		57.3
(0.4)
A 		49
B 67
(1.9)
A 		76.2
(3)
P 		65
(1.7)
A 		43
(-0.9)
A 		67
(1.9)
P 		24.8
(-3)
A 		51
C 62.1
(0.2)
P 		80.5
(2.5)
P 		84.4
(3)
P 		58.6
(-0.3)
A 		36.9
(-3)
A 		36.9
(-3)
A 		48
avr 69.4
(1.9) 		62.2
(0.7) 		75.9
(3) 		53.1
(-0.8) 		49.8
(-1.3) 		39.7
(-3) 		36
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 33
1 2 3 4 range
A 41.5
(3)
M 		12.3
(-2.5)
A 		9.5
(-3)
A 		23.9
(-0.3)
P 		32
B 27.6
(3)
P 		21.6
(1.1)
P 		9
(-3)
A 		16
(-0.7)
A 		19
C 35.1
(3)
A 		12
(-3)
A 		12
(-3)
A 		32.7
(2.4)
P 		23
avr 34.7
(3) 		15.3
(-1.8) 		10.2
(-3) 		24.2
(0.4) 		25

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 18
1 2 3 4 5 6 range
A 14.6
(0.7)
A 		10.6
(-3)
P 		17.1
(3)
A 		14.6
(0.7)
A 		13.7
(-0.1)
A 		13.9
(0)
A 		7
B 23.3
(1.7)
A 		25.4
(2.4)
P 		15.8
(-0.8)
A 		11.4
(-2.3)
A 		27.2
(3)
P 		9.2
(-3)
A 		18
C 23
(2.3)
P 		24.6
(3)
P 		21.5
(1.5)
P 		11.8
(-3)
A 		11.9
(-3)
A 		12.3
(-2.8)
A 		13
avr 20.3
(3) 		20.2
(2.9) 		18.1
(1.4) 		12.6
(-2.4) 		17.6
(1.1) 		11.8
(-3) 		9
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193304_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16455
Sequence Type Exemplar sequence
Representative Public ID K11G12.7 NCBI
Target Description K11G12.7 /REP_DB=WormBase Gene ID /WP=CE28345 /GEN=acr-3 /GB=AAK71378.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor subunit
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_076728(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076728 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-3) (acr-3) mRNA, complete cds. 11/11 None
K11G12.7 ENSEMBL cdna:known chromosome:CEL140:X:6709491:6712792:1 gene:K11G12.7 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000013743 8/11 Cross Hyb Matching Probes None
SNAP00000013738 6/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:6709539-6712732(+) 100.0 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor subunit
Gene Symbol acr-3
Ensembl K11G12.7
Entrez Gene 180937 Entrez gene
SwissProt Q93149 EMBL-EBI
WormBase CE28345 Wormbase
Functional Annotations
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 AAK71378 Acetylcholine receptor protein 3 [Caenorhabditis elegans] emb|CAA69927.1| nicotinic acetylcholine receptor subunit ACR-3 [Caenorhabditis elegans] ref|NP_509129.1| AcetylCholine Receptor family member (acr-3) [Caenorhabditis elegans] sp|Q93149|ACR3_CAEEL Acetylcholine receptor, beta-type subunit acr-3 precursor 0.0
blast T16616 hypothetical protein K11G12.2 - Caenorhabditis elegans 0.0
blast CAE65777 Hypothetical protein CBG10872 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 3.1E-66
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.9E-88
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509129.1 5 227-249,259-281,294-316,320-342,440-462
K11G12.7 5 227-249,259-281,294-316,320-342,440-462
Sequence
Target Sequence 
>C. ELEGANS:193304_AT
aaacgtatatttccgaggtccagcaactcatatcatgccgaattgggttaaaactgtttt
tctgaagttccttcctgttctttttgtgatgcgtcggcctgaaagtacggagaaagagtt
ggccaaaatgaaacgagagaaacgtgagagaagaagtatgaaatctgcactgaagacgtt
ctttaaaagaaacgatgctaagatcagcgagcaaccaaaacaaacatcaaggaaagatgg
gtccagttccgaggaaaaactgtcatcggatgcgaagaaagctattgaagcgatcgagta
tatcacaacgcatctcacacacgacaacgccttcaaacggcaacgtgaagaatggaagtt
tgtttctgtggtgattgatcgattacttctctatctttttttcgcagtaaccactggagg
aactgtcggaatacttttatccgcgccgaatgtt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
AAACGTATATTTCCGAGGTCCAGCA 133 127 903 Antisense
GGTCCAGCAACTCATATCATGCCGA 420 499 919 Antisense
TTCCTTCCTGTTCTTTTTGTGATGC 228 699 970 Antisense
TTTGTGATGCGTCGGCCTGAAAGTA 709 665 985 Antisense
GAAAGATGGGTCCAGTTCCGAGGAA 125 361 1134 Antisense
AGTATATCACAACGCATCTCACACA 336 63 1199 Antisense
GACAACGCCTTCAAACGGCAACGTG 493 365 1225 Antisense
GATTGATCGATTACTTCTCTATCTT 376 435 1275 Antisense
TCTATCTTTTTTTCGCAGTAACCAC 466 615 1292 Antisense
GTAACCACTGGAGGAACTGTCGGAA 524 459 1309 Antisense
AATACTTTTATCCGCGCCGAATGTT 704 169 1332 Antisense
Sequence Source Affymetrix Proprietary Database