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[192479_s_at]

Description Y40H4A.1 /REP_DB=WormBase Gene ID /WP=CE27783 /TR=Q9XW31 /GB=CAA22301.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=muscarinic acetylcholine receptor
Cluster 6grp_total > 16      4grp_total > 38      6grp_cgc > 13      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 206
1 2 3 4 range
A 228.2
(3)
P 		142.3
(-1.7)
A 		117.5
(-3)
A 		195.3
(1.2)
P 		111
B 259.2
(3)
P 		168.5
(-1)
A 		124.2
(-3)
A 		138.4
(-2.4)
P 		135
C 323
(3)
P 		159.1
(-2.3)
A 		136.9
(-3)
A 		197.3
(-1.1)
P 		186
avr 270.1
(3) 		156.6
(-1.7) 		126.2
(-3) 		177
(-0.9) 		144

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 213
1 2 3 4 5 6 range
A 178.9
(-0.9)
A 		244.5
(3)
P 		143.5
(-3)
M 		164.2
(-1.8)
A 		179.1
(-0.9)
A 		166.8
(-1.6)
A 		101
B 297.4
(3)
M 		193.2
(0.1)
P 		125.2
(-1.8)
P 		111.2
(-2.2)
A 		84.3
(-3)
A 		101.2
(-2.5)
M 		213
C 292.5
(3)
P 		222
(0.4)
P 		131.7
(-2.9)
M 		162
(-1.8)
A 		132.2
(-2.9)
A 		129.4
(-3)
P 		163
avr 256.3
(3) 		219.9
(1.2) 		133.5
(-2.9) 		145.8
(-2.3) 		131.9
(-3) 		132.5
(-3) 		124
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 78
1 2 3 4 range
A 83.1
(3)
P 		30.9
(-2.7)
A 		30.7
(-2.8)
A 		28.6
(-3)
P 		55
B 82.7
(3)
P 		41.6
(-1.6)
A 		28.8
(-3)
A 		29.5
(-2.9)
P 		54
C 106.9
(3)
P 		45.7
(-2)
A 		47.7
(-1.8)
A 		33.3
(-3)
P 		74
avr 90.9
(3) 		39.4
(-2.1) 		35.7
(-2.5) 		30.5
(-3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 79
1 2 3 4 5 6 range
A 33
(-2.8)
A 		87
(3)
P 		31.2
(-3)
M 		41.7
(-1.9)
A 		54
(-0.5)
A 		40.6
(-2)
A 		56
B 103.5
(3)
M 		64.3
(-0.2)
P 		30.4
(-2.9)
P 		29.5
(-3)
A 		34.2
(-2.6)
A 		37.7
(-2.3)
M 		74
C 108.4
(3)
P 		67.7
(-0.2)
P 		33.5
(-2.9)
M 		32.6
(-3)
A 		42.8
(-2.2)
A 		43.3
(-2.2)
P 		76
avr 81.6
(3) 		73
(2) 		31.7
(-3) 		34.6
(-2.7) 		43.7
(-1.6) 		40.5
(-1.9) 		50
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192479_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.14362
Sequence Type Exemplar sequence
Representative Public ID Y40H4A.1 NCBI
Target Description Y40H4A.1 /REP_DB=WormBase Gene ID /WP=CE27783 /TR=Q9XW31 /GB=CAA22301.2 /SUBMIT=HINXTON /CHR=5 /FEA=Sanger Annotation /DEF=muscarinic 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_001029065(11), NM_001029064(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001029065 NCBI Caenorhabditis elegans G-protein-linked Acetylcholine Receptor family member (gar-3) (gar-3) mRNA, complete cds. 11/11 None
NM_001029064 NCBI Caenorhabditis elegans G-protein-linked Acetylcholine Receptor family member (gar-3) (gar-3) mRNA, complete cds. 11/11 None
SNAP00000025586 ENSEMBL cdna:SNAP chromosome:CEL140:V:14569699:14572564:-1 11/11 None
GENEFINDER00000025602 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:14570435:14572564:-1 11/11 None
Y40H4A.1b.1 ENSEMBL cdna:known chromosome:CEL140:V:14567341:14572585:-1 gene:Y40H4A.1 11/11 None
Y40H4A.1a ENSEMBL cdna:known chromosome:CEL140:V:14567407:14582308:-1 gene:Y40H4A.1 11/11 A 
Y40H4A.1b.2 ENSEMBL cdna:known chromosome:CEL140:V:14567415:14572583:-1 gene:Y40H4A.1 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
chrV:14570434-14572564(-) 100.0 100.0
Public Domain and Genome References
Ensembl Y40H4A.1
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast CAE47465 Hypothetical protein Y40H4A.1b [Caenorhabditis elegans] emb|CAE47471.1| Hypothetical protein Y40H4A.1b [Caenorhabditis elegans] ref|NP_001024236.1| G-protein-linked Acetylcholine Receptor family member (gar-3) [Caenorhabditis elegans] gb|AAP97492.1| muscarinic acetylcholine receptor large isoform; GAR-3a [Caenorhabditis elegans] sp|Q9U7D5|ACM3_CAEEL Muscarinic acetylcholine receptor gar-3 (G-protein linked acetylcholine receptor 3) 0.0
blast CAC42272 Hypothetical protein Y40H4A.1a [Caenorhabditis elegans] emb|CAA22301.2| Hypothetical protein Y40H4A.1a [Caenorhabditis elegans] ref|NP_001024235.1| G-protein-linked Acetylcholine Receptor family member (gar-3) [Caenorhabditis elegans] gb|AAD48771.1| muscarinic acetylcholine receptor [Caenorhabditis elegans] 0.0
blast CAE60870 Hypothetical protein CBG04581 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 1.1E-89
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 6.4E-90
Pfam IPR000276 EMBL-EBI Rhodopsin-like GPCR superfamily 8.8E-56
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001024236.1 7 68-90,102-124,139-161,182-204,228-250,526-548,558-580
NP_001024235.1 7 68-90,102-124,139-161,182-204,228-250,500-522,532-554
Y40H4A.1b.1 7 68-90,102-124,139-161,182-204,228-250,526-548,558-580
Y40H4A.1a 7 68-90,102-124,139-161,182-204,228-250,500-522,532-554
Y40H4A.1b.2 7 68-90,102-124,139-161,182-204,228-250,526-548,558-580
SNAP00000025586 5 68-90,102-124,139-161,182-204,228-250
GENEFINDER00000025602 5 68-90,102-124,139-161,182-204,228-250
Sequence
Target Sequence 
>C. ELEGANS:192479_S_AT
tttcctgtttagtttagccgtcgcagatattgcaattggtgtcatatcaatacccatgtt
cacatactacactgcaattcaaaaatgggatcttggatacacaatgtgccagttctggtt
atgcatcgattatttaatgagcaacgcatccgtcctgaatcttctgctcatttccttcga
tcgatacttctcagtgacacgaccgttgtcctacaggcctagaagaacaactaaaaaagc
attgacaatgattgcatgcacatatataatatccttgattctatggcctccatggatcat
ttcatggccgtatatcgaaggaaaattcactgcagaacctggaacttgtgtcgtacaatt
cctgcagacaaatccgtatgtaacagttggaaccgcggttgctgcattttatcttcctgt
taca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTCCTGTTTAGTTTAGCCGTCGCA 663 669 318 Antisense
CCCATGTTCACATACTACACTGCAA 17 259 370 Antisense
GCCAGTTCTGGTTATGCATCGATTA 285 281 425 Antisense
TTAATGAGCAACGCATCCGTCCTGA 166 685 451 Antisense
TCCTTCGATCGATACTTCTCAGTGA 657 589 490 Antisense
CTCAGTGACACGACCGTTGTCCTAC 34 229 507 Antisense
TAATATCCTTGATTCTATGGCCTCC 399 635 584 Antisense
CTATGGCCTCCATGGATCATTTCAT 165 223 598 Antisense
GCAGAACCTGGAACTTGTGTCGTAC 589 311 649 Antisense
AGTTGGAACCGCGGTTGCTGCATTT 351 65 702 Antisense
TGCTGCATTTTATCTTCCTGTTACA 366 581 717 Antisense
Sequence Source Affymetrix Proprietary Database