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[193413_at]

Description F53E10.2 /REP_DB=WormBase Gene ID /WP=CE10922 /GEN=acr-17 /TR=P91320 /GB=AAB42293.1 /SUBMIT=ST.LOUIS /CHR=5 /FEA=Sanger Annotation /DEF=acetylcholine receptor protein
Cluster 6grp_total > 33      4grp_total > 39      6grp_cgc > 80      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 203
1 2 3 4 range
A 223.1
(3)
P 		77.8
(-2.2)
A 		55.5
(-3)
A 		70.2
(-2.5)
A 		168
B 258.8
(3)
P 		89.9
(-2.4)
A 		71.6
(-3)
A 		119.6
(-1.5)
P 		187
C 234.1
(3)
P 		114.7
(-1.9)
A 		86.4
(-3)
P 		153.1
(-0.3)
P 		148
avr 238.7
(3) 		94.1
(-2.2) 		71.2
(-3) 		114.3
(-1.5) 		168

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 96
1 2 3 4 5 6 range
A 114.2
(3)
P 		94.9
(0.4)
M 		101
(1.2)
A 		106.1
(1.9)
P 		91.3
(-0.1)
A 		70.5
(-3)
A 		44
B 129.6
(3)
P 		110.2
(1.1)
P 		123.5
(2.4)
A 		115.2
(1.6)
A 		81.1
(-1.6)
A 		67
(-3)
A 		63
C 78
(1)
P 		83.7
(1.6)
A 		99.6
(3)
P 		33.4
(-3)
A 		70.9
(0.4)
A 		92.9
(2.4)
A 		66
avr 107.3
(2.9) 		96.3
(0.8) 		108
(3) 		84.9
(-1.4) 		81.1
(-2.2) 		76.8
(-3) 		31
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 72
1 2 3 4 range
A 81.2
(3)
P 		16.9
(-2.4)
A 		14.5
(-2.6)
A 		10.3
(-3)
A 		71
B 82.5
(3)
P 		22.2
(-2.5)
A 		16.6
(-3)
A 		25.5
(-2.2)
P 		66
C 77.5
(3)
P 		33
(-2.2)
A 		30.1
(-2.5)
P 		25.8
(-3)
P 		52
avr 80.4
(3) 		24
(-2.6) 		20.4
(-3) 		20.5
(-3) 		60

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 38
1 2 3 4 5 6 range
A 21
(-1.6)
P 		33.8
(3)
M 		22
(-1.3)
A 		26.9
(0.5)
P 		27.6
(0.8)
A 		17.2
(-3)
A 		17
B 45.1
(3)
P 		36.7
(0.5)
P 		30
(-1.5)
A 		30.5
(-1.4)
A 		33
(-0.6)
A 		25
(-3)
A 		20
C 28.9
(2.5)
P 		25.5
(1.6)
A 		25.3
(1.6)
P 		6.7
(-3)
A 		22.9
(1)
A 		31.1
(3)
A 		24
avr 31.7
(2.8) 		32
(3) 		25.8
(-0.5) 		21.4
(-3) 		27.8
(0.6) 		24.4
(-1.3) 		11
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 193413_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.15252
Sequence Type Exemplar sequence
Representative Public ID F53E10.2 NCBI
Target Description F53E10.2 /REP_DB=WormBase Gene ID /WP=CE10922 /GEN=acr-17 /TR=P91320 /GB=AAB42293.1 /SUBMIT=ST.LOUIS /CHR=5 /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_001028790(11), NM_001028789(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_001028790 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-17) (acr-17) mRNA, complete cds. 11/11 None
NM_001028789 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-17) (acr-17) mRNA, complete cds. 11/11 None
SNAP00000043464 ENSEMBL cdna:SNAP chromosome:CEL140:V:2605666:2615024:1 11/11 None
GENEFINDER00000043466 ENSEMBL cdna:GeneFinder chromosome:CEL140:V:2608501:2615024:1 11/11 None
F53E10.2b ENSEMBL cdna:known chromosome:CEL140:V:2608483:2615065:1 gene:F53E10.2 11/11 None
F53E10.2a ENSEMBL cdna:known chromosome:CEL140:V:2608501:2613987:1 gene:F53E10.2 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:2608500-2613987(+) 100.0 100.0
Public Domain and Genome References
Ensembl F53E10.2
Functional Annotations
Protein Similarities
Method ID Description E-Value
blast AAT48618 Acetylcholine receptor protein 17, isoform b [Caenorhabditis elegans] ref|NP_001023961.1| AcetylCholine Receptor family member (acr-17) [Caenorhabditis elegans] 0.0
blast AAR98634 acetylcholine receptor, nicotinic, alpha 9 like (58.1 kD) alternative variant a [Caenorhabditis elegans] 0.0
blast AAB42293 Acetylcholine receptor protein 17, isoform a [Caenorhabditis elegans] ref|NP_001023960.1| AcetylCholine Receptor family member (acr-17) [Caenorhabditis elegans] 0.0
blast CAE62511 Hypothetical protein CBG06616 [Caenorhabditis briggsae] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.2E-15
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.4E-81
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.2E-15
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 8.3E-31
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 3.7E-26
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_001023961.1 4 246-268,281-299,314-336,479-497
NP_001023960.1 3 246-268,281-299,314-336
F53E10.2b 4 246-268,281-299,314-336,479-497
F53E10.2a 3 246-268,281-299,314-336
SNAP00000043464 4 196-218,231-249,264-286,401-419
GENEFINDER00000043466 4 246-268,281-299,314-336,517-535
Sequence
Target Sequence 
>C. ELEGANS:193413_AT
gagctattacctgttcacgctgatcataccgtcggcattcatcaccatagtcacagtgat
cggatttttcaccccgcactcatcgaccggagagaatacggaaaaagtcagtctaggagt
cactgcactgctctcactggctattattttaatgatggtgtccgacaaactaccggcaac
atcaaattcggtgcctcttctcgggcaatattacattggactgatcttcatcatgttctt
ggccacatattgcaccacattcacattaggaatacagatgcagggaaatgcgggtcgccc
gataacccgtcgcctccgatccttcctcctctcaattcgaatgaatcggaactcgtttgt
ccagtggtttttcgggcgggagctcatgaatacccaggagagcatcaagatgagactgaa
aaaatatcacaacaagaccgcttcgctcatcgagcaagagtctatagatagctcgaagct
tctggatccggcaatgtacaatgtggtggtggatgtgttgagttctgtgcaatcgattcg
gcaggatttgacgtcacag

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GAGCTATTACCTGTTCACGCTGATC 504 387 747 Antisense
GATCATACCGTCGGCATTCATCACC 60 421 768 Antisense
AGTCTAGGAGTCACTGCACTGCTCT 548 61 856 Antisense
CACTGCTCTCACTGGCTATTATTTT 228 199 872 Antisense
GGTGTCCGACAAACTACCGGCAACA 544 497 903 Antisense
CAACATCAAATTCGGTGCCTCTTCT 463 189 923 Antisense
TGTTCTTGGCCACATATTGCACCAC 120 561 980 Antisense
CTTCCTCCTCTCAATTCGAATGAAT 345 219 1068 Antisense
AATCGGAACTCGTTTGTCCAGTGGT 421 169 1090 Antisense
ACCGCTTCGCTCATCGAGCAAGAGT 453 89 1183 Antisense
GATTCGGCAGGATTTGACGTCACAG 283 433 1281 Antisense
Sequence Source Affymetrix Proprietary Database