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[192481_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_high1_10_10 > 13      4grp_high_8_8 > 33      6grp_total > 13      4grp_total > 46      6grp_cgc > 30      6grp_high1_sub > De      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 502
1 2 3 4 range
A 434.3
(3)
P 		179.2
(-1.3)
P 		80.4
(-3)
P 		169.6
(-1.5)
P 		354
B 561
(3)
P 		157.2
(-2.7)
P 		135.6
(-3)
P 		146.2
(-2.9)
P 		425
C 442.2
(3)
P 		231.5
(-0.3)
P 		58.6
(-3)
M 		169.8
(-1.3)
P 		384
avr 479.2
(3) 		189.3
(-1.5) 		91.5
(-3) 		161.9
(-1.9) 		388

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 341
1 2 3 4 5 6 range
A 243.5
(2.3)
P 		267.7
(3)
P 		247.7
(2.4)
P 		221.8
(1.7)
P 		93.8
(-2)
P 		58.2
(-3)
A 		210
B 292
(1.4)
P 		381.7
(3)
P 		180.3
(-0.6)
P 		198
(-0.3)
P 		73.1
(-2.5)
P 		46.5
(-3)
P 		335
C 282.7
(2.4)
P 		308
(3)
P 		208.4
(0.8)
P 		125.8
(-1.1)
P 		56.7
(-2.6)
P 		40.5
(-3)
P 		268
avr 272.7
(2) 		319.1
(3) 		212.1
(0.6) 		181.9
(-0) 		74.5
(-2.4) 		48.4
(-3) 		271
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 159
1 2 3 4 range
A 158.1
(3)
P 		38.9
(-2.2)
P 		21
(-3)
P 		24.8
(-2.8)
P 		137
B 178.9
(3)
P 		38.8
(-2.7)
P 		31.4
(-3)
P 		31.1
(-3)
P 		148
C 146.4
(3)
P 		66.6
(-0.8)
P 		20.4
(-3)
M 		28.6
(-2.6)
P 		126
avr 161.1
(3) 		48.1
(-2) 		24.3
(-3) 		28.2
(-2.8) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 113
1 2 3 4 5 6 range
A 44.9
(-0.7)
P 		95.2
(3)
P 		53.9
(-0.1)
P 		56.3
(0.1)
P 		28.3
(-2)
P 		14.2
(-3)
A 		81
B 101.6
(1.6)
P 		127
(3)
P 		43.8
(-1.6)
P 		52.4
(-1.1)
P 		29.7
(-2.3)
P 		17.4
(-3)
P 		110
C 104.8
(3)
P 		94
(2.3)
P 		53
(-0.4)
P 		25.3
(-2.2)
P 		18.3
(-2.7)
P 		13.6
(-3)
P 		91
avr 83.8
(1.6) 		105.4
(3) 		50.2
(-0.7) 		44.7
(-1) 		25.4
(-2.3) 		15.1
(-3) 		90
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192481_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(10)
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. 10/11 A 
GENEFINDER00000040284 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:7502749:7506128:-1 10/11 None
SNAP00000040274 ENSEMBL cdna:SNAP chromosome:CEL140:X:7503768:7506128:-1 10/11 None
F48E3.7 ENSEMBL cdna:known chromosome:CEL140:X:7503733:7506578:-1 gene:F48E3.7 10/11 A 
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
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
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 5.0E-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
GENEFINDER00000040284 3 235-257,270-292,302-324
SNAP00000040274 4 157-179,192-214,224-246,319-341
Sequence
Target Sequence 
>C. ELEGANS:192481_AT
tttctattacttggaacttcgccgaaagccattgtattacattgtagtcattctgctccc
atcatttttaattgttaccgtctcaaacattggactgtttacgcctcatggagttcacgg
agacagagaagagcatgtgtcattgggtctcactacaatgcttaccatggctgttatctt
agacatggtcacaggacaaatgccaagaagtagtgaaggaataccactattgggaatgta
tgtgctgattgaatttgttatatctgtaattgctgtattagtatcagttgtaataatttt
tgcacacgaaaggatgctatatctcgatgcaactcctccgtactgggtgtgcaaattgtt
ttcagatgactgcaaaatgtcattggaagaaatagaagaagatttttgttcaaaaccagc
tgatctggtgcaagagttaaggttttgtatggaggaaatcaaacgatatcttgacgaaca
ggattcgacagagaagaaccgaattatatggcagaggtttttctcgtggacagatattat
attcataggacataacttgctatacggtttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCTATTACTTGGAACTTCGCCGA 239 671 684 Antisense
GAACTTCGCCGAAAGCCATTGTATT 80 349 697 Antisense
TTACATTGTAGTCATTCTGCTCCCA 620 683 720 Antisense
TTCTGCTCCCATCATTTTTAATTGT 441 693 734 Antisense
GTTACCGTCTCAAACATTGGACTGT 24 447 757 Antisense
ACATTGGACTGTTTACGCCTCATGG 220 105 770 Antisense
TACGCCTCATGGAGTTCACGGAGAC 393 649 783 Antisense
AGAGCATGTGTCATTGGGTCTCACT 304 69 813 Antisense
GGGTCTCACTACAATGCTTACCATG 527 497 828 Antisense
GCTTACCATGGCTGTTATCTTAGAC 7 305 843 Antisense
GGACATAACTTGCTATACGGTTTCA 348 523 1231 Antisense
Sequence Source Affymetrix Proprietary Database