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[192442_at] acetylcholine receptor

Description C35C5.5 /REP_DB=WormBase Gene ID /WP=CE03068 /GEN=acr-13 /TR=Q93329 /GB=CAB01685.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=acetylcholine receptor
Cluster 6grp_total > 13      4grp_total > 44      6grp_cgc > 30      6grp_cgc_sub > De      6grp_total_sub > Decrease      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 97
1 2 3 4 range
A 207.6
(3)
P 		166.1
(-0.7)
A 		140.1
(-3)
A 		179.3
(0.5)
A 		68
B 194.7
(1.4)
P 		220.8
(3)
A 		150.5
(-1.3)
A 		123.7
(-3)
A 		97
C 193.9
(0.6)
P 		214.7
(3)
A 		175.2
(-1.6)
A 		162.9
(-3)
A 		52
avr 198.7
(2.8) 		200.5
(3) 		155.3
(-3) 		155.3
(-3) 		45

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 190
1 2 3 4 5 6 range
A 278.7
(3)
P 		199.9
(-0.2)
P 		205.1
(0)
P 		201.8
(-0.1)
P 		152.2
(-2.1)
P 		130.6
(-3)
A 		148
B 185.4
(0.6)
P 		248.6
(3)
A 		212.2
(1.6)
P 		166.4
(-0.1)
P 		115.3
(-2)
A 		88.5
(-3)
A 		160
C 203.3
(0.8)
M 		260.8
(3)
M 		175.7
(-0.3)
P 		222.6
(1.5)
P 		106.1
(-3)
A 		125.2
(-2.3)
A 		155
avr 222.5
(2.3) 		236.4
(3) 		197.7
(1.1) 		196.9
(1.1) 		124.5
(-2.5) 		114.8
(-3) 		122
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 49
1 2 3 4 range
A 75.6
(3)
P 		36.1
(-1.8)
A 		36.6
(-1.7)
A 		26.2
(-3)
A 		49
B 62.1
(3)
P 		54.5
(1.7)
A 		34.9
(-1.6)
A 		26.4
(-3)
A 		36
C 64.2
(3)
P 		61.7
(2.6)
A 		61.1
(2.5)
A 		27.5
(-3)
A 		37
avr 67.3
(3) 		50.8
(0.6) 		44.2
(-0.4) 		26.7
(-3) 		41

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 51
1 2 3 4 5 6 range
A 51.4
(-0)
P 		71.1
(3)
P 		44.7
(-1)
P 		51.2
(-0)
P 		45.9
(-0.8)
P 		31.8
(-3)
A 		39
B 64.5
(0.8)
P 		82.8
(3)
A 		51.5
(-0.8)
P 		44.1
(-1.7)
P 		46.8
(-1.3)
A 		33
(-3)
A 		50
C 75.4
(2.4)
M 		79.6
(3)
M 		44.7
(-1.6)
P 		44.8
(-1.6)
P 		34.3
(-3)
A 		41.9
(-2)
A 		45
avr 63.8
(1) 		77.8
(3) 		47
(-1.4) 		46.7
(-1.4) 		42.3
(-2) 		35.6
(-3) 		42
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192442_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17151
Sequence Type Exemplar sequence
Representative Public ID C35C5.5 NCBI
Target Description C35C5.5 /REP_DB=WormBase Gene ID /WP=CE03068 /GEN=acr-13 /TR=Q93329 /GB=CAB01685.1 /SUBMIT=HINXTON /CHR=X /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_077531(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077531 NCBI Caenorhabditis elegans LEVamisole resistant family member (lev-8) (lev-8) mRNA, complete cds. 11/11 None
GENEFINDER00000005118 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:11560017:11563507:1 11/11 None
SNAP00000005111 ENSEMBL cdna:SNAP chromosome:CEL140:X:11560928:11563507:1 10/11 None
C35C5.5 ENSEMBL cdna:known chromosome:CEL140:X:11560836:11563618:1 gene:C35C5.5 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:11560849-11563507(+) 100.0 100.0
Public Domain and Genome References
Gene Title acetylcholine receptor
Gene Symbol lev-8
Ensembl C35C5.5
Entrez Gene 191600 Entrez gene
SwissProt Q93329 EMBL-EBI
WormBase CE34160 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
6955 immune response 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
5164 tumor necrosis factor receptor binding 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 CAB01685 Hypothetical protein C35C5.5 [Caenorhabditis elegans] ref|NP_509932.2| LEVamisole resistant family member (lev-8) [Caenorhabditis elegans] 0.0
blast CAE70615 Hypothetical protein CBG17298 [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-109
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.1E-22
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.0E-90
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.1E-22
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.8E-85
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 1.3E-13
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.8E-85
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_509932.2 5 7-26,260-282,294-311,321-343,477-499
C35C5.5 5 7-26,260-282,294-311,321-343,477-499
GENEFINDER00000005118 4 333-355,367-384,394-416,550-572
SNAP00000005111 4 276-298,310-327,337-359,459-481
Sequence
Target Sequence 
>C. ELEGANS:192442_AT
ggtctcagtttctatcattctttcagttgtcactatcaatatgtacagaaaacaagcttt
ctcatctggaatgtctcattggcaacgatggctctttgtgcagcggctaccgaaactgct
ccggttgaaaacgttggagcacacactaggaccagatgagggtagtgaaacaacaactcc
tcgcactggttcagtttctgttactgcatctgttacgcaacgaactttgaatcccaacaa
taattcaccggtgttcccaccgcaacggttacgtctgttaagtcttgtgcagatggacga
agctttaaaacaacgttgtgcggcagataatttggatttattcagaaaaattgctggtca
tttaaagatcatctctgcacatttccacaaccaacaaatggagggaaagattactgaaga
atggcagttaatgagcttggttatcgataggatattcctgatattgtttcttgcagtcag
tatggcagcaaatataatgtttgtttacaattctccaacattattcgacgataggccttc
tttggtaccaagtgttgcccacaaacc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GGTCTCAGTTTCTATCATTCTTTCA 387 503 1086 Antisense
GTCTCATTGGCAACGATGGCTCTTT 614 469 1158 Antisense
TGTGCAGCGGCTACCGAAACTGCTC 597 555 1182 Antisense
GGAGCACACACTAGGACCAGATGAG 358 519 1221 Antisense
TCCTCGCACTGGTTCAGTTTCTGTT 538 591 1263 Antisense
GTTTCTGTTACTGCATCTGTTACGC 559 449 1279 Antisense
CAATAATTCACCGGTGTTCCCACCG 336 181 1323 Antisense
GGTTACGTCTGTTAAGTCTTGTGCA 342 507 1352 Antisense
AAAGATCATCTCTGCACATTTCCAC 387 123 1449 Antisense
GACGATAGGCCTTCTTTGGTACCAA 275 379 1612 Antisense
TGGTACCAAGTGTTGCCCACAAACC 111 551 1628 Antisense
Sequence Source Affymetrix Proprietary Database