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[193868_at] nicotinic acetylcholine receptor subunit

Description K11G12.2 /REP_DB=WormBase Gene ID /WP=CE07380 /GEN=acr-2 /TR=SW:P48182 /GB=AAK71377.1 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor subunit
Cluster 6grp_highest_10_10 > 33      6grp_high1_10_10 > 23      4grp_high_8_8 > 34      6grp_highest_nonorm > 90      6grp_total > 03      4grp_total > 54      6grp_highest_sub > 02      6grp_cgc > 51      6grp_high1_sub > 02      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 140.6
(3)
P 		101.7
(-1.9)
P 		136.6
(2.5)
M 		92.5
(-3)
P 		48
B 113.3
(3)
P 		105.1
(1.7)
P 		75.9
(-3)
P 		80.7
(-2.2)
P 		37
C 146.7
(3)
P 		107.5
(-0.3)
P 		90.1
(-1.7)
P 		74.7
(-3)
P 		72
avr 133.5
(3) 		104.8
(-0.4) 		100.9
(-0.8) 		82.6
(-3) 		51

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 131
1 2 3 4 5 6 range
A 115.4
(2.3)
P 		124.5
(3)
P 		94
(0.7)
P 		122.7
(2.9)
P 		86.3
(0.1)
P 		44.6
(-3)
P 		80
B 125.1
(0.7)
P 		175.4
(3)
P 		118.1
(0.4)
P 		100
(-0.5)
P 		81.7
(-1.3)
P 		45.3
(-3)
P 		130
C 122.9
(1.4)
P 		145
(2.9)
P 		125.2
(1.6)
P 		146.2
(3)
P 		111.9
(0.7)
P 		58.2
(-3)
P 		88
avr 121.1
(1.3) 		148.3
(3) 		112.4
(0.8) 		123
(1.5) 		93.3
(-0.3) 		49.4
(-3) 		99
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 39
1 2 3 4 range
A 51.2
(3)
P 		22.1
(-1.6)
P 		35.7
(0.5)
M 		13.5
(-3)
P 		38
B 36.1
(3)
P 		25.9
(-0.2)
P 		17.6
(-2.9)
P 		17.2
(-3)
P 		19
C 48.6
(3)
P 		30.9
(0)
P 		31.4
(0.1)
P 		12.6
(-3)
P 		36
avr 45.3
(3) 		26.3
(-0.7) 		28.2
(-0.3) 		14.4
(-3) 		31

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 48
1 2 3 4 5 6 range
A 21.3
(-1.1)
P 		44.3
(3)
P 		20.5
(-1.3)
P 		31.1
(0.6)
P 		26
(-0.3)
P 		10.9
(-3)
P 		33
B 43.5
(0.8)
P 		58.4
(3)
P 		28.7
(-1.3)
P 		26.5
(-1.6)
P 		33.2
(-0.6)
P 		16.9
(-3)
P 		42
C 45.6
(3)
P 		44.3
(2.7)
P 		31.9
(-0.1)
P 		29.4
(-0.7)
P 		36.2
(0.8)
P 		19.5
(-3)
P 		26
avr 36.8
(0.8) 		49
(3) 		27
(-1) 		29
(-0.6) 		31.8
(-0.1) 		15.8
(-3) 		33
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193868_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16321
Sequence Type Exemplar sequence
Representative Public ID K11G12.2 NCBI
Target Description K11G12.2 /REP_DB=WormBase Gene ID /WP=CE07380 /GEN=acr-2 /TR=SW:P48182 /GB=AAK71377.1 /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_076727(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076727 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-2) (acr-2) mRNA, complete cds. 11/11 None
GENEFINDER00000013746 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:6704388:6709095:1 11/11 None
K11G12.2 ENSEMBL cdna:known chromosome:CEL140:X:6702645:6709095:1 gene:K11G12.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000013737 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:6702644-6709095(+) 100.0 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor subunit
Gene Symbol acr-2
Ensembl K11G12.2
Entrez Gene 180936 Entrez gene
SwissProt P48182 EMBL-EBI
WormBase CE07380 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
6811 ion transport inferred from direct assay 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
15464 acetylcholine receptor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAK71377 Acetylcholine receptor protein 2 [Caenorhabditis elegans] emb|CAA60157.1| nicotinic acetylcholine receptor [Caenorhabditis elegans] ref|NP_509128.1| AcetylCholine Receptor family member (acr-2) [Caenorhabditis elegans] sp|P48182|ACR2_CAEEL Acetylcholine receptor, beta-type subunit acr-2 precursor 0.0
blast CAE65776 Hypothetical protein CBG10871 [Caenorhabditis briggsae] 0.0
blast T16616 hypothetical protein K11G12.2 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.5E-41
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 4.1E-19
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.1E-91
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 7.5E-41
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 4.1E-19
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.1E-91
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509128.1 4 265-287,299-321,331-353,523-545
K11G12.2 4 265-287,299-321,331-353,523-545
GENEFINDER00000013746 4 210-232,244-266,276-298,468-490
Sequence
Target Sequence 
>C. ELEGANS:193868_AT
ggtgtttcttgagtttttgcctcatttattagtgatgaaacgaccagaaaggatacctat
tttcaatgggtattttgtagaagagtattgtgcttcggaaatttttgatgcaagccttgt
tatgccgtctatgacagcaacgatgcttccgtttctgcaagtgacaacaaacttgaaagc
ggcgagttcgacgagttccggacaatcttctgaacaccacgagaattgctcgaaatggaa
aaaaagactgtcaataagaatgtccaaaaggagagctccaagggcacgcctcgatgacga
tagcgaagacataattgacgatacaaacggaaatcatgttgattcactgcaagaaaaaat
cagcaaagaaatgaaaactacggtggaagccatcgcgtatattgccgagcacatgaaaag
agaaatgagtttgaaaaagatgagagacgactggaagtatgttgcaatggtgttagacag
actcattcttctgatattctttggagtaacgttaggtggaacattgggaattatttgctc
agcgccacatgtgtttgactt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTGTTTCTTGAGTTTTTGCCTCAT 144 501 1113 Antisense
CAAGCCTTGTTATGCCGTCTATGAC 323 183 1223 Antisense
ATGCTTCCGTTTCTGCAAGTGACAA 564 43 1255 Antisense
GAAAGCGGCGAGTTCGACGAGTTCC 405 359 1287 Antisense
TCCGGACAATCTTCTGAACACCACG 585 593 1309 Antisense
AAAGGAGAGCTCCAAGGGCACGCCT 402 121 1379 Antisense
GGCACGCCTCGATGACGATAGCGAA 665 535 1395 Antisense
GAAGCCATCGCGTATATTGCCGAGC 202 345 1498 Antisense
GACTCATTCTTCTGATATTCTTTGG 631 373 1592 Antisense
CATTGGGAATTATTTGCTCAGCGCC 650 215 1634 Antisense
GCTCAGCGCCACATGTGTTTGACTT 520 301 1649 Antisense
Sequence Source Affymetrix Proprietary Database