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[192482_s_at] Acetycholine receptor

Description F48E3.7 /REP_DB=WormBase Gene ID /WP=CE28403 /GEN=acr-22 /TR=Q9GP98 /GB=AAF99957.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=Acetycholine receptor
Cluster 6grp_total > 24      4grp_total > 38      6grp_cgc > 21      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 210
1 2 3 4 range
A 157.7
(3)
P 		100.6
(0.4)
P 		27.1
(-3)
A 		76.9
(-0.7)
P 		131
B 232.7
(3)
P 		64.1
(-2.8)
A 		58.4
(-3)
A 		96.3
(-1.7)
P 		174
C 176.6
(3)
P 		53.2
(-1.8)
A 		22.9
(-3)
A 		77.8
(-0.9)
P 		154
avr 189
(3) 		72.6
(-1.6) 		36.1
(-3) 		83.7
(-1.1) 		153

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 133
1 2 3 4 5 6 range
A 136.3
(3)
M 		45.4
(-1.1)
A 		94.1
(1.1)
P 		3.7
(-3)
A 		46.7
(-1.1)
A 		3.8
(-3)
A 		133
B 105
(3)
P 		64
(-0.2)
P 		98.6
(2.5)
P 		50.7
(-1.3)
A 		29
(-3)
A 		30.4
(-2.9)
A 		76
C 68.7
(0.7)
P 		106.7
(3)
P 		27.9
(-1.7)
A 		39.1
(-1.1)
A 		7.1
(-3)
A 		22.4
(-2.1)
A 		100
avr 103.3
(3) 		72
(0.8) 		73.5
(0.9) 		31.2
(-2.1) 		27.6
(-2.4) 		18.9
(-3) 		84
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 67
1 2 3 4 range
A 57.4
(3)
P 		21.8
(-1.2)
P 		7.1
(-3)
A 		11.3
(-2.5)
P 		50
B 74.2
(3)
P 		15.8
(-2.8)
A 		13.5
(-3)
A 		20.5
(-2.3)
P 		61
C 58.5
(3)
P 		15.3
(-2.1)
A 		8
(-3)
A 		13.1
(-2.4)
P 		51
avr 63.4
(3) 		17.6
(-2.1) 		9.5
(-3) 		15
(-2.4) 		54

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 36
1 2 3 4 5 6 range
A 25.1
(3)
M 		16.2
(0.8)
A 		20.5
(1.9)
P 		0.9
(-3)
A 		14.1
(0.3)
A 		0.9
(-3)
A 		24
B 36.5
(3)
P 		21.3
(-0.6)
P 		23.9
(-0)
P 		13.4
(-2.5)
A 		11.8
(-2.9)
A 		11.3
(-3)
A 		25
C 25.5
(1.6)
P 		32.6
(3)
P 		7.1
(-2)
A 		7.9
(-1.9)
A 		2.3
(-3)
A 		7.5
(-2)
A 		30
avr 29
(3) 		23.4
(1.5) 		17.2
(-0.2) 		7.4
(-2.8) 		9.4
(-2.3) 		6.6
(-3) 		22
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192482_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16188
Sequence Type Exemplar sequence
Representative Public ID F48E3.7 NCBI
Target Description F48E3.7 /REP_DB=WormBase Gene ID /WP=CE28403 /GEN=acr-22 /TR=Q9GP98 /GB=AAF99957.2 /SUBMIT=ST.LOUIS /CHR=X /FEA=Sanger Annotation /DEF=Acetycholine 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_076869(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_076869 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-22) (acr-22) mRNA, complete cds. 11/11 A 
SNAP00000040274 ENSEMBL cdna:SNAP chromosome:CEL140:X:7503768:7506128:-1 11/11 None
F48E3.7 ENSEMBL cdna:known chromosome:CEL140:X:7503733:7506578:-1 gene:F48E3.7 11/11 A 
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000040284 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:7503257-7506127(-) 100.0 100.0
Public Domain and Genome References
Gene Title Acetycholine receptor
Gene Symbol acr-22
Ensembl F48E3.7
Entrez Gene 181009 Entrez gene
SwissProt Q9GP98 EMBL-EBI
WormBase CE28403 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
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 AAF99957 Acetylcholine receptor protein 22 [Caenorhabditis elegans] ref|NP_509270.1| AcetylCholine Receptor family member (acr-22) [Caenorhabditis elegans] gb|AAR89633.1| acetylcholine receptor (51.1 kD) (acr-22) [Caenorhabditis elegans] 0.0
blast CAE70225 Hypothetical protein CBG16705 [Caenorhabditis briggsae] 0.0
blast T16406 hypothetical protein F48E3.7 - Caenorhabditis elegans 0.0
blast AAF99957 Acetylcholine receptor protein 22 [Caenorhabditis elegans] ref|NP_509270.1| AcetylCholine Receptor family member (acr-22) [Caenorhabditis elegans] gb|AAR89633.1| acetylcholine receptor (51.1 kD) (acr-22) [Caenorhabditis elegans] 1.0E-152
blast CAE70225 Hypothetical protein CBG16705 [Caenorhabditis briggsae] 1.0E-147
blast T16406 hypothetical protein F48E3.7 - Caenorhabditis elegans 1.0E-139
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.0E-52
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.3E-5
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 4.9E-19
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509270.1 4 243-265,278-300,310-332,405-427
F48E3.7 4 243-265,278-300,310-332,405-427
SNAP00000040274 4 157-179,192-214,224-246,319-341
Sequence
Target Sequence 
>C. ELEGANS:192482_S_AT
gcacacgaaaggatgctatatctcgatgcaactcctccgtactgggtgtgcaaattgttt
tcagatgactgcaaaatgtcattggaagaaatagaagaagatttttgttcaaaaccagct
gatctggtgcaagagttaaggttttgtatggaggaaatcaaacgatatcttgacgaacag
gattcgacagagaagaaccgaattatatggcagaggtttttctcgtggacagatatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCACACGAAAGGATGCTATATCTCG 522 317 985 Antisense
TGCTATATCTCGATGCAACTCCTCC 566 579 998 Antisense
CTCCTCCGTACTGGGTGTGCAAATT 505 235 1016 Antisense
GTGTGCAAATTGTTTTCAGATGACT 520 485 1030 Antisense
ATTTTTGTTCAAAACCAGCTGATCT 617 15 1085 Antisense
CAGCTGATCTGGTGCAAGAGTTAAG 196 203 1100 Antisense
AACGATATCTTGACGAACAGGATTC 582 143 1145 Antisense
AACAGGATTCGACAGAGAAGAACCG 290 135 1160 Antisense
GAAGAACCGAATTATATGGCAGAGG 635 339 1176 Antisense
ATGGCAGAGGTTTTTCTCGTGGACA 516 51 1191 Antisense
GAGGTTTTTCTCGTGGACAGATATT 195 403 1197 Antisense
Sequence Source Affymetrix Proprietary Database