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[192678_s_at] acetylcholine receptor

Description F09E8.7 /REP_DB=WormBase Gene ID /WP=CE24888 /GEN=lev-1 /TR=SW:Q27218 /GB=CAB03148.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=acetylcholine receptor
Cluster 6grp_high1_10_10 > 33      6grp_total > 12      4grp_total > 45      6grp_cgc > 62      6grp_high1_sub > 02      6grp_cgc_sub > 02      6grp_total_sub > Hat      6grp_rule_based > S2      4grp_rule_based > L1      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 311
1 2 3 4 range
A 568.2
(3)
P 		420.7
(-1.2)
P 		358.1
(-3)
A 		361.9
(-2.9)
A 		210
B 642
(3)
P 		476.1
(-0.2)
M 		372.7
(-2.2)
P 		331
(-3)
A 		311
C 555.6
(3)
P 		501.1
(1.2)
P 		423.6
(-1.3)
P 		371.1
(-3)
A 		185
avr 588.6
(3) 		466
(-0.1) 		384.8
(-2.2) 		354.7
(-3) 		234

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 485
1 2 3 4 5 6 range
A 497.9
(1)
P 		610
(3)
P 		423.3
(-0.4)
P 		491.9
(0.9)
P 		534.4
(1.6)
P 		280.1
(-3)
M 		330
B 482.9
(-0.5)
P 		744.2
(3)
P 		616.5
(1.3)
P 		457.6
(-0.8)
P 		443.4
(-1)
P 		297
(-3)
P 		447
C 481.7
(0.2)
P 		676.1
(3)
P 		512.1
(0.6)
P 		461.9
(-0.1)
P 		395.3
(-1)
M 		259.3
(-3)
P 		417
avr 487.5
(0.1) 		676.8
(3) 		517.3
(0.6) 		470.5
(-0.1) 		457.7
(-0.3) 		278.8
(-3) 		398
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 154
1 2 3 4 range
A 206.9
(3)
P 		91.3
(-1.5)
P 		93.6
(-1.4)
A 		53
(-3)
A 		154
B 204.7
(3)
P 		117.6
(-0.9)
M 		86.4
(-2.3)
P 		70.5
(-3)
A 		134
C 183.9
(3)
P 		144.1
(1)
P 		147.6
(1.2)
P 		62.6
(-3)
A 		121
avr 198.5
(3) 		117.7
(-0.6) 		109.2
(-0.9) 		62
(-3) 		137

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 180
1 2 3 4 5 6 range
A 91.8
(-2)
P 		216.9
(3)
P 		92.2
(-2)
P 		124.8
(-0.7)
P 		161.3
(0.8)
P 		68.2
(-3)
M 		149
B 168
(-0.5)
P 		247.7
(3)
P 		149.7
(-1.3)
P 		121.2
(-2.5)
P 		180.2
(0)
P 		110.7
(-3)
P 		137
C 178.5
(1.6)
P 		206.3
(3)
P 		130.3
(-0.8)
P 		92.9
(-2.7)
P 		127.9
(-0.9)
M 		86.8
(-3)
P 		120
avr 146.1
(-0.4) 		223.6
(3) 		124.1
(-1.4) 		113
(-1.9) 		156.5
(0) 		88.6
(-3) 		135
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192678_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.9792
Sequence Type Exemplar sequence
Representative Public ID F09E8.7 NCBI
Target Description F09E8.7 /REP_DB=WormBase Gene ID /WP=CE24888 /GEN=lev-1 /TR=SW:Q27218 /GB=CAB03148.2 /SUBMIT=HINXTON /CHR=4 /FEA=Sanger Annotation /DEF=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_070133(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_070133 NCBI Caenorhabditis elegans LEVamisole resistant family member (lev-1) (lev-1) mRNA, complete cds. 11/11 None
SNAP00000001898 ENSEMBL cdna:SNAP chromosome:CEL140:IV:13174245:13177690:-1 11/11 None
GENEFINDER00000001906 ENSEMBL cdna:GeneFinder chromosome:CEL140:IV:13174245:13180981:-1 11/11 None
F09E8.7 ENSEMBL cdna:known chromosome:CEL140:IV:13174134:13179353:-1 gene:F09E8.7 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
chrIV:13174250-13179122(-) 100.0 100.0
Public Domain and Genome References
Gene Title acetylcholine receptor
Gene Symbol lev-1
Ensembl F09E8.7
Entrez Gene 178269 Entrez gene
SwissProt Q27218 EMBL-EBI
WormBase CE24888 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 CAB03148 Hypothetical protein F09E8.7 [Caenorhabditis elegans] emb|CAA67198.1| non-alpha nicotinic acetylcholine receptor subunit [Caenorhabditis elegans] emb|CAA66902.1| nicotinic acetylcholine receptor [Caenorhabditis elegans] ref|NP_502534.1| LEVamisole resistant family member (lev-1) [Caenorhabditis elegans] sp|Q27218|ACH7_CAEEL Acetylcholine receptor, beta-type subunit lev-1 precursor (Levamisole resistant protein 1) 0.0
blast CAE58646 Hypothetical protein CBG01814 [Caenorhabditis briggsae] 0.0
blast CAB02308 Hypothetical protein T08G11.5 [Caenorhabditis elegans] ref|NP_492399.1| UNCoordinated family member (unc-29) [Caenorhabditis elegans] sp|P48181|ACH2_CAEEL Acetylcholine receptor, beta-type subunit unc-29 precursor (Uncoordinated protein 29) gb|AAB39358.1| non-alpha nicotinic acetylcholine receptor subunit precursor [Caenorhabditis elegans] 1.0E-164
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.1E-59
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.7E-87
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.1E-59
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.6E-82
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.1E-59
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.7E-87
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_502534.1 4 238-260,272-294,304-326,454-476
F09E8.7 4 238-260,272-294,304-326,454-476
SNAP00000001898 4 197-219,231-253,263-285,413-435
GENEFINDER00000001906 4 355-377,389-411,421-443,571-593
Sequence
Target Sequence 
>C. ELEGANS:192678_S_AT
gtatcttttgctcacttttgtgctcaatatcattactattatggtgacaactatcatttg
taatatctattttagaagcccaattacccatcgattaccaccttgggttaggaaagtttt
ccttgatattctcccattactgatgtgcatgcagcgtccgcaccggaaaaatgtgataca
gcggagtcatcggagactactggaaactggtccaagtgtcgaagaaaatccaatgagatc
aggagaacatcatccattatgccggcatactcataatcaagatagctgtaggagggtgag
aatacaaagtgatgagctggatgatgagctgtcgcctgaagctcaacgagcaatcgatgc
tattgagtttatcacggaaaatcgcagagacgaagagattacaaagcagttccgagatga
ttggaagttcattgcaagcgtcgtggatcggtttttgttgtacgggttctttggggcaac
agttggtggaacgataggaataatcttcactgctccatcagttttc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATCTTTTGCTCACTTTTGTGCTC 221 455 921 Antisense
TTTAGAAGCCCAATTACCCATCGAT 83 671 991 Antisense
CCATCGATTACCACCTTGGGTTAGG 230 243 1008 Antisense
ATTCTCCCATTACTGATGTGCATGC 298 11 1048 Antisense
ATGCAGCGTCCGCACCGGAAAAATG 281 37 1069 Antisense
GAACATCATCCATTATGCCGGCATA 404 351 1165 Antisense
CTGGATGATGAGCTGTCGCCTGAAG 533 239 1237 Antisense
GGAAGTTCATTGCAAGCGTCGTGGA 164 531 1343 Antisense
GCGTCGTGGATCGGTTTTTGTTGTA 24 293 1358 Antisense
TGTACGGGTTCTTTGGGGCAACAGT 648 557 1379 Antisense
AATCTTCACTGCTCCATCAGTTTTC 334 169 1422 Antisense
Sequence Source Affymetrix Proprietary Database