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[191566_at] channel protein

Description F59B1.9 /REP_DB=WormBase Gene ID /WP=CE20898 /GEN=acr-23 /TR=O61884 /GB=AAC17666.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=channel protein
Cluster 6grp_total > 04      4grp_total > 27      6grp_cgc > 41      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 15.5
(-1.3)
A 		26.8
(3)
A 		11.2
(-3)
A 		14.3
(-1.8)
A 		16
B 15.1
(0.9)
A 		20.4
(3)
A 		16.7
(1.5)
A 		5.6
(-3)
A 		15
C 16.5
(-1.6)
A 		8.6
(-3)
A 		11.8
(-2.5)
A 		43.7
(3)
A 		35
avr 15.7
(-1.1) 		18.6
(1.1) 		13.2
(-3) 		21.2
(3) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 24
1 2 3 4 5 6 range
A 28
(2.4)
A 		30
(3)
A 		19.2
(-0.3)
A 		17.1
(-0.9)
A 		10.4
(-3)
A 		10.7
(-2.9)
A 		20
B 19.9
(3)
A 		16.3
(1.4)
A 		14.7
(0.7)
A 		19.3
(2.7)
A 		11
(-0.9)
A 		6.3
(-3)
A 		14
C 16.1
(-0.4)
A 		15.6
(-0.5)
A 		9.8
(-2.7)
A 		9
(-3)
A 		25.1
(3)
A 		10.7
(-2.4)
A 		16
avr 21.3
(3) 		20.6
(2.7) 		14.6
(-0.3) 		15.1
(-0.1) 		15.5
(0.1) 		9.2
(-3) 		12
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 6
1 2 3 4 range
A 5.7
(2.8)
A 		5.8
(3)
A 		2.9
(-1.7)
A 		2.1
(-3)
A 		4
B 4.8
(2.7)
A 		5
(3)
A 		3.9
(1.3)
A 		1.2
(-3)
A 		4
C 5.5
(0.7)
A 		2.5
(-3)
A 		4.1
(-1)
A 		7.4
(3)
A 		5
avr 5.3
(3) 		4.4
(-0.2) 		3.6
(-3) 		3.6
(-3) 		2

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 9
1 2 3 4 5 6 range
A 5.2
(-1.1)
A 		10.7
(3)
A 		4.2
(-1.8)
A 		4.3
(-1.7)
A 		3.1
(-2.6)
A 		2.6
(-3)
A 		8
B 6.9
(3)
A 		5.4
(1)
A 		3.6
(-1.3)
A 		5.1
(0.7)
A 		4.5
(-0.1)
A 		2.3
(-3)
A 		5
C 6
(1)
A 		4.8
(-0.1)
A 		2.5
(-2.3)
A 		1.8
(-3)
A 		8.1
(3)
A 		3.6
(-1.3)
A 		6
avr 6
(1.6) 		7
(3) 		3.4
(-2.1) 		3.7
(-1.7) 		5.2
(0.4) 		2.8
(-3) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 191566_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15820
Sequence Type Exemplar sequence
Representative Public ID F59B1.9 NCBI
Target Description F59B1.9 /REP_DB=WormBase Gene ID /WP=CE20898 /GEN=acr-23 /TR=O61884 /GB=AAC17666.2 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=channel 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_071623(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_071623 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-23) (acr-23) mRNA, complete cds. 11/11 None
SNAP00000030019 ENSEMBL cdna:SNAP chromosome:CEL140:V:3651555:3652963:-1 11/11 None
F59B1.9 ENSEMBL cdna:known chromosome:CEL140:V:3651481:3659323:-1 gene:F59B1.9 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:3651554-3659314(-) 96.5 100.0
Public Domain and Genome References
Gene Title channel protein
Gene Symbol acr-23
Ensembl F59B1.9
Entrez Gene 191606 Entrez gene
SwissProt O61884 EMBL-EBI
WormBase CE36939 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
15464 acetylcholine receptor activity inferred from sequence similarity QuickGO AmiGO
Protein Similarities
Method ID Description E-Value
blast AAC17666 Acetylcholine receptor protein 23 [Caenorhabditis elegans] ref|NP_504024.2| AcetylCholine Receptor family member (acr-23) [Caenorhabditis elegans] gb|AAR89634.1| acetylcholine receptor (62.5 kD) (acr-23) [Caenorhabditis elegans] 0.0
blast CAE62546 Hypothetical protein CBG06655 [Caenorhabditis briggsae] 1.0E-155
blast CAE65920 Hypothetical protein CBG11088 [Caenorhabditis briggsae] 1.0E-138
blast AAC17666 Acetylcholine receptor protein 23 [Caenorhabditis elegans] ref|NP_504024.2| AcetylCholine Receptor family member (acr-23) [Caenorhabditis elegans] gb|AAR89634.1| acetylcholine receptor (62.5 kD) (acr-23) [Caenorhabditis elegans] 1.0E-115
blast CAE62546 Hypothetical protein CBG06655 [Caenorhabditis briggsae] 3.0E-77
blast CAE65920 Hypothetical protein CBG11088 [Caenorhabditis briggsae] 4.0E-29
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.0E-8
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.5E-74
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_504024.2 4 246-268,289-306,321-343,514-536
F59B1.9 4 246-268,289-306,321-343,514-536
SNAP00000030019 1 188-210
Sequence
Target Sequence 
>C. ELEGANS:191566_AT
gccgcctcatcagtgatattcgttcaaaaactcggatccatcggaaatccaccagcatca
aaaaccatgaaatggacgcatcggatagctccgttcgtcctgattcaaatgccactggtc
atgaagcaggcctacgcgaaacgggccaaagaggagaagcatcggaaacggatgtcgaga
aagaatagcatgtggacgaaggtttatcatttggcacgagatcattcgaagcttatggaa
accgttccggatggtgctgtgaagtttaatcagatctcggattttaagaataatgatatt
ggaaatatggagtctccgagaatggccgaatcacaaacatccgaaaccttcgccgcaccg
atggataccagcttcacagaatctcttcacatccctgagctcaatcgtgtcgcctccagc
aatagtattcaaagtgtcctaaaaccgaccgaaatccaactgacaccatattgtacacgg
aacattgtggaactcgaatgggattgggtggctgcggtgttggaacgagtttttcttata
tttttcacaatttgcttcttattctcagctatt

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GCCGCCTCATCAGTGATATTCGTTC 346 285 1354 Antisense
GATCCATCGGAAATCCACCAGCATC 639 415 1388 Antisense
TGGACGCATCGGATAGCTCCGTTCG 676 547 1426 Antisense
CCGTTCGTCCTGATTCAAATGCCAC 68 265 1444 Antisense
GAAGCAGGCCTACGCGAAACGGGCC 575 339 1476 Antisense
GAAACCGTTCCGGATGGTGCTGTGA 648 357 1591 Antisense
GAGTCTCCGAGAATGGCCGAATCAC 248 401 1663 Antisense
GCACCGATGGATACCAGCTTCACAG 350 315 1708 Antisense
AGCTTCACAGAATCTCTTCACATCC 383 79 1723 Antisense
TGTCGCCTCCAGCAATAGTATTCAA 506 555 1761 Antisense
AATTTGCTTCTTATTCTCAGCTATT 222 175 1902 Antisense
Sequence Source Affymetrix Proprietary Database