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[193235_at] acetylcholine receptor protein

Description R01E6.4 /REP_DB=WormBase Gene ID /WP=CE03521 /GEN=acr-12 /TR=Q21615 /GB=CAA92184.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=acetylcholine receptor protein
Cluster 6grp_total > 12      4grp_total > 38      6grp_cgc > 43      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 131
1 2 3 4 range
A 141.7
(3)
P 		134.8
(2.3)
A 		78.9
(-3)
A 		81.3
(-2.8)
A 		63
B 159.1
(3)
P 		76.3
(-1.7)
A 		53.9
(-3)
A 		121.1
(0.8)
A 		105
C 185.2
(3)
A 		103.2
(-1.6)
A 		83.6
(-2.7)
A 		78
(-3)
A 		107
avr 162
(3) 		104.8
(-0.8) 		72.1
(-3) 		93.5
(-1.6) 		90

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 148
1 2 3 4 5 6 range
A 83.9
(-0.6)
A 		160.1
(3)
P 		128.6
(1.5)
A 		92.6
(-0.2)
A 		48.2
(-2.3)
A 		32.7
(-3)
A 		127
B 95.9
(-0.6)
P 		180.9
(3)
P 		76.8
(-1.4)
A 		47.7
(-2.6)
A 		73.8
(-1.5)
A 		37.9
(-3)
A 		143
C 116.3
(0.6)
P 		167.8
(3)
P 		101.4
(-0.1)
A 		58.3
(-2)
A 		56.9
(-2.1)
A 		37.5
(-3)
A 		130
avr 98.7
(-0.2) 		169.6
(3) 		102.3
(-0) 		66.2
(-1.6) 		59.6
(-1.9) 		36
(-3) 		134
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 51.6
(3)
P 		29.3
(-0.4)
A 		20.6
(-1.7)
A 		11.9
(-3)
A 		40
B 50.7
(3)
P 		18.8
(-2)
A 		12.5
(-3)
A 		25.8
(-0.9)
A 		38
C 61.3
(3)
A 		29.7
(-0.9)
A 		29.1
(-1)
A 		13.2
(-3)
A 		48
avr 54.5
(3) 		25.9
(-1.6) 		20.7
(-2.4) 		17
(-3) 		38

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 52
1 2 3 4 5 6 range
A 15.5
(-2.1)
A 		56.9
(3)
P 		28
(-0.5)
A 		23.5
(-1.1)
A 		14.5
(-2.2)
A 		8
(-3)
A 		49
B 33.4
(-0.4)
P 		60.2
(3)
P 		18.7
(-2.2)
A 		12.6
(-3)
A 		30
(-0.8)
A 		14.1
(-2.8)
A 		48
C 43.1
(1.8)
P 		51.2
(3)
P 		25.8
(-0.9)
A 		11.7
(-3)
A 		18.4
(-2)
A 		12.6
(-2.9)
A 		40
avr 30.7
(-0.4) 		56.1
(3) 		24.2
(-1.3) 		15.9
(-2.4) 		21
(-1.7) 		11.6
(-3) 		45
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193235_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.18032
Sequence Type Exemplar sequence
Representative Public ID R01E6.4 NCBI
Target Description R01E6.4 /REP_DB=WormBase Gene ID /WP=CE03521 /GEN=acr-12 /TR=Q21615 /GB=CAA92184.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=acetylcholine receptor protein
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_077861(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077861 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-12) (acr-12) mRNA, complete cds. 11/11 None
SNAP00000031386 ENSEMBL cdna:SNAP chromosome:CEL140:X:13532986:13536231:1 11/11 None
GENEFINDER00000031398 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:13532986:13536231:1 11/11 None
R01E6.4 ENSEMBL cdna:known chromosome:CEL140:X:13532829:13536383:1 gene:R01E6.4 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
chrX:13532985-13536231(+) 100.0 100.0
Public Domain and Genome References
Gene Title acetylcholine receptor protein
Gene Symbol acr-12
Ensembl R01E6.4
Entrez Gene 181475 Entrez gene
SwissProt Q9GQU9 EMBL-EBI
WormBase CE29334 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 CAA92184 Hypothetical protein R01E6.4 [Caenorhabditis elegans] ref|NP_510262.1| AcetylCholine Receptor family member (acr-12) [Caenorhabditis elegans] gb|AAG35183.1| nicotinic acetylcholine receptor-like subunit ACR-12 [Caenorhabditis elegans] 0.0
blast CAE63130 Hypothetical protein CBG07428 [Caenorhabditis briggsae] 0.0
blast CAA90341 Hypothetical protein ZC504.2 [Caenorhabditis elegans] ref|NP_509745.2| AcetylCholine Receptor family member (acr-8) [Caenorhabditis elegans] 1.0E-119
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 9.0E-34
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 4.0E-12
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.0E-100
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 9.0E-34
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 4.0E-12
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.7E-95
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510262.1 4 264-286,293-311,326-348,523-545
R01E6.4 4 264-286,293-311,326-348,523-545
SNAP00000031386 4 275-297,304-322,337-359,534-556
GENEFINDER00000031398 4 275-297,304-322,337-359,534-556
Sequence
Target Sequence 
>C. ELEGANS:193235_AT
gaagtttctcccaaaaatcttgctgatgtcgcgacccgaaaaaggcgaagtgaccaaaca
accaccactagtgaatgcggcaagtttggtgggctccaactatgcaacagcggcgaaggc
ggctaacgagtatcgcaacaaggccaaaggaaagaacaatgatttgatgagcttaagagg
gaagccaagctcacaagctgttttgaataacacattcgatatgaggatgaggaataatga
tagtacggtggagaatagactgaagccgtatttatgtgctcaaaataataacgcgccaac
ggtggcgtttaggaaaaccaaacgacaaaaaagcaaatcggttgatgatgtggtttttat
gaacttactgaatcaagtgaggttcattgcagagcacttccgacataatgaactggaagg
ggagatttcggatgattggacatttgtcgcaatggtcttggatcggctattccttatcat
tttctcagtgctcaatgtaggaacagtctttataattttggagtcaccgtctctatacga
ctattctaaaccgatgaacatcactgtgcccaacaagccgttaggaca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAAGTTTCTCCCAAAAATCTTGCTG 63 337 1089 Antisense
CTTGCTGATGTCGCGACCCGAAAAA 417 217 1107 Antisense
GAATGCGGCAAGTTTGGTGGGCTCC 225 331 1161 Antisense
TGGTGGGCTCCAACTATGCAACAGC 167 553 1175 Antisense
GCGGCGAAGGCGGCTAACGAGTATC 280 293 1198 Antisense
GAGGTTCATTGCAGAGCACTTCCGA 518 403 1467 Antisense
GGTCTTGGATCGGCTATTCCTTATC 259 501 1542 Antisense
ATTCCTTATCATTTTCTCAGTGCTC 143 9 1557 Antisense
GTCACCGTCTCTATACGACTATTCT 678 465 1611 Antisense
ACCGATGAACATCACTGTGCCCAAC 244 89 1638 Antisense
CTGTGCCCAACAAGCCGTTAGGACA 564 239 1652 Antisense
Sequence Source Affymetrix Proprietary Database