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[192741_at] Acetylcholine receptor

Description T09A5.3 /REP_DB=WormBase Gene ID /WP=CE28078 /GEN=acr-7 /TR=SW:P45963 /GB=CAA85338.2 /SUBMIT=HINXTON /CHR=2 /FEA=Sanger Annotation /DEF=Acetylcholine receptor
Cluster 4grp_high_8_8 > 36      6grp_total > 41      4grp_total > 35      6grp_cgc > 60      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 53
1 2 3 4 range
A 73.4
(-3)
P 		100.1
(1.9)
M 		73.4
(-3)
P 		106
(3)
A 		33
B 76.3
(-0.3)
P 		104
(3)
P 		52.9
(-3)
A 		83.1
(0.5)
P 		51
C 102.7
(3)
P 		94.8
(1.1)
P 		85.3
(-1.2)
P 		77.7
(-3)
M 		25
avr 84.1
(-0.2) 		99.6
(3) 		70.5
(-3) 		88.9
(0.8) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 82
1 2 3 4 5 6 range
A 111.3
(3)
A 		87.8
(0.9)
P 		94.8
(1.5)
P 		110.4
(2.9)
P 		44.2
(-3)
A 		44.4
(-3)
A 		67
B 90.8
(1.4)
P 		112.9
(3)
P 		100.9
(2.1)
P 		88.8
(1.2)
P 		55.6
(-1.2)
M 		31.2
(-3)
A 		82
C 85.2
(1.9)
P 		80.7
(1.5)
P 		96.7
(3)
P 		91.9
(2.6)
M 		53.7
(-1)
P 		32
(-3)
A 		65
avr 95.8
(2.8) 		93.8
(2.6) 		97.5
(3) 		97
(3) 		51.2
(-1.5) 		35.9
(-3) 		62
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 22
1 2 3 4 range
A 26.7
(3)
P 		21.7
(0.3)
M 		19.2
(-1)
P 		15.5
(-3)
A 		11
B 24.3
(2.4)
P 		25.7
(3)
P 		12.3
(-3)
A 		17.7
(-0.6)
P 		13
C 34
(3)
P 		27.3
(1.1)
P 		29.7
(1.8)
P 		13.1
(-3)
M 		21
avr 28.3
(3) 		24.9
(1.4) 		20.4
(-0.7) 		15.4
(-3) 		13

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 27
1 2 3 4 5 6 range
A 20.5
(-0.1)
A 		31.2
(3)
P 		20.7
(-0.1)
P 		28
(2.1)
P 		13.3
(-2.3)
A 		10.8
(-3)
A 		20
B 31.6
(1.6)
P 		37.6
(3)
P 		24.5
(-0)
P 		23.5
(-0.3)
P 		22.6
(-0.5)
M 		11.6
(-3)
A 		26
C 31.6
(3)
P 		24.6
(1)
P 		24.6
(1)
P 		18.5
(-0.8)
M 		17.4
(-1.1)
P 		10.7
(-3)
A 		21
avr 27.9
(2) 		31.1
(3) 		23.3
(0.7) 		23.3
(0.7) 		17.8
(-1) 		11
(-3) 		20
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192741_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.5452
Sequence Type Exemplar sequence
Representative Public ID T09A5.3 NCBI
Target Description T09A5.3 /REP_DB=WormBase Gene ID /WP=CE28078 /GEN=acr-7 /TR=SW:P45963 /GB=CAA85338.2 /SUBMIT=HINXTON /CHR=2 /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_063246(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_063246 NCBI Caenorhabditis elegans AcetylCholine Receptor family member (acr-7) (acr-7) mRNA, complete cds. 11/11 None
SNAP00000029433 ENSEMBL cdna:SNAP chromosome:CEL140:II:7846119:7849426:-1 9/11 None
T09A5.3 ENSEMBL cdna:known chromosome:CEL140:II:7845583:7849718:-1 gene:T09A5.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
GENEFINDER00000029445 3/11 Cross Hyb Matching Probes None
GENEFINDER00000029446 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrII:7845581-7849639(-) 100.0 100.0
Public Domain and Genome References
Gene Title Acetylcholine receptor
Gene Symbol acr-7
Ensembl T09A5.3
Entrez Gene 174262 Entrez gene
SwissProt P45963 EMBL-EBI
WormBase CE28078 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
Protein Similarities
Method ID Description E-Value
blast CAA85338 Hypothetical protein T09A5.3 [Caenorhabditis elegans] ref|NP_495647.1| AcetylCholine Receptor family member (acr-7) [Caenorhabditis elegans] gb|AAG35182.1| nicotinic acetylcholine receptor-like subunit ACR-7 [Caenorhabditis elegans] sp|P45963|ACR7_CAEEL Acetylcholine receptor, alpha-type subunit acr-7 precursor 0.0
blast CAE59838 Hypothetical protein CBG03310 [Caenorhabditis briggsae] 0.0
blast T24724 hypothetical protein T09A5.3 - Caenorhabditis elegans 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 4.1E-17
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 2.5E-7
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 8.6E-94
Pfam IPR006029 EMBL-EBI Neurotransmitter-gated ion-channel transmembrane region 5.0E-15
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.8E-79
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_495647.1 6 5-27,248-270,280-298,311-333,343-362,512-534
T09A5.3 6 5-27,248-270,280-298,311-333,343-362,512-534
SNAP00000029433 4 189-211,221-238,251-273,288-305
Sequence
Target Sequence 
>C. ELEGANS:192741_AT
gtatcattcatgtctcttctagcattttgtctgcctgcaactgatttgagtgaaaagatc
ggattacaaactacaatcttgctatccgtatgtttcttcttgacaattctatctgaaatg
actccaacaacatctgaagctgtacctctacttggagtattcttctcagcactcacgttc
attgtagcaatgtcaactacatttactatattggttctaaatattcgttatcgacagatc
acaaatcattatttatctccaatggtatttcgatcgatatttctagaatgtttgccatgg
cttatgatgatgaaaagaccagatcacaaatttcgtcgtggatcttcgtatcgtgatagt
tcagcagatcaatgtgttcaggtttcaaataaaggatccgaactagctaatatattggtc
acaattttgaaaatgtacgaagtaatggtatcccaagtcgaaagaattcggaaaaggatt
gcactaaaaagaaaaagaaaggatatccaggacgaatggaagtttgcagctcaagcagtt
gaccgattctgccttataatcttca

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTATCATTCATGTCTCTTCTAGCAT 250 455 790 Antisense
TCTTCTAGCATTTTGTCTGCCTGCA 496 617 804 Antisense
GTCTGCCTGCAACTGATTTGAGTGA 461 471 818 Antisense
TACAAACTACAATCTTGCTATCCGT 690 641 854 Antisense
TGCTATCCGTATGTTTCTTCTTGAC 156 581 869 Antisense
ATCTGAAGCTGTACCTCTACTTGGA 318 33 921 Antisense
TTCTCAGCACTCACGTTCATTGTAG 652 691 952 Antisense
GACCAGATCACAAATTTCGTCGTGG 60 385 1106 Antisense
TTCGTCGTGGATCTTCGTATCGTGA 493 695 1121 Antisense
GGACGAATGGAAGTTTGCAGCTCAA 25 525 1299 Antisense
GACCGATTCTGCCTTATAATCTTCA 265 383 1330 Antisense
Sequence Source Affymetrix Proprietary Database