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[192358_at] nicotinic acetylcholine receptor

Description T01H10.2 /REP_DB=WormBase Gene ID /WP=CE03601 /TR=Q22080 /GB=CAA91537.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
Cluster 6grp_total > 12      4grp_total > 37      6grp_total_sub > Hat      6grp_rule_based > S2      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 38
1 2 3 4 range
A 59.6
(3)
A 		32.9
(-3)
A 		39.2
(-1.6)
A 		54.5
(1.9)
A 		27
B 24.3
(-3)
A 		54.9
(3)
A 		31.9
(-1.5)
A 		35.7
(-0.8)
A 		31
C 60.6
(3)
A 		43.2
(0.3)
A 		22.2
(-3)
A 		37.9
(-0.5)
A 		38
avr 48.2
(3) 		43.7
(1.4) 		31.1
(-3) 		42.7
(1.1) 		17

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 64
1 2 3 4 5 6 range
A 15.6
(-1.8)
A 		66.6
(3)
A 		15.4
(-1.8)
A 		21.2
(-1.3)
A 		2.6
(-3)
A 		3.2
(-2.9)
A 		64
B 36.1
(2.2)
A 		32.6
(1.6)
A 		34.5
(1.9)
A 		41.2
(3)
A 		4.5
(-3)
A 		15.5
(-1.2)
A 		37
C 31.2
(0.3)
A 		52.7
(3)
A 		26
(-0.4)
A 		5.4
(-3)
A 		6.6
(-2.8)
A 		14.2
(-1.9)
A 		47
avr 27.6
(0) 		50.6
(3) 		25.3
(-0.3) 		22.6
(-0.7) 		4.6
(-3) 		11
(-2.2) 		46
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 15
1 2 3 4 range
A 21.7
(3)
A 		7.1
(-3)
A 		10.3
(-1.7)
A 		8
(-2.6)
A 		15
B 7.7
(-2.7)
A 		13.6
(3)
A 		7.4
(-3)
A 		7.6
(-2.8)
A 		6
C 20.1
(3)
A 		12.4
(-0.4)
A 		7.7
(-2.4)
A 		6.4
(-3)
A 		14
avr 16.5
(3) 		11
(-0.6) 		8.5
(-2.2) 		7.3
(-3) 		9

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 23
1 2 3 4 5 6 range
A 2.9
(-2.4)
A 		23.7
(3)
A 		3.4
(-2.3)
A 		5.4
(-1.8)
A 		0.8
(-3)
A 		0.8
(-3)
A 		23
B 12.5
(3)
A 		10.8
(2)
A 		8.4
(0.7)
A 		10.9
(2.1)
A 		1.8
(-3)
A 		5.8
(-0.8)
A 		11
C 11.6
(1.2)
A 		16.1
(3)
A 		6.6
(-0.8)
A 		1.1
(-3)
A 		2.1
(-2.6)
A 		4.8
(-1.5)
A 		15
avr 9
(-0.1) 		16.9
(3) 		6.1
(-1.2) 		5.8
(-1.4) 		1.6
(-3) 		3.8
(-2.1) 		15
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192358_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16517
Sequence Type Exemplar sequence
Representative Public ID T01H10.2 NCBI
Target Description T01H10.2 /REP_DB=WormBase Gene ID /WP=CE03601 /TR=Q22080 /GB=CAA91537.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nicotinic 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_077623(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077623 NCBI Caenorhabditis elegans T01H10.2 (T01H10.2) mRNA, complete cds. 11/11 None
GENEFINDER00000038729 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12109059:12115844:1 11/11 None
T01H10.2 ENSEMBL cdna:known chromosome:CEL140:X:12111434:12113396:1 gene:T01H10.2 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000038721 2/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12111612-12113229(+) 100.0 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor
Ensembl T01H10.2
Entrez Gene 187972 Entrez gene
SwissProt Q22080 EMBL-EBI
WormBase CE36662 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
Protein Similarities
Method ID Description E-Value
blast CAA91537 Hypothetical protein T01H10.2 [Caenorhabditis elegans] ref|NP_510024.2| T01H10.2 [Caenorhabditis elegans] 0.0
blast CAA91536 Hypothetical protein T01H10.1 [Caenorhabditis elegans] ref|NP_510023.2| T01H10.1 [Caenorhabditis elegans] 0.0
blast CAA91538 Hypothetical protein T01H10.3 [Caenorhabditis elegans] ref|NP_510025.2| T01H10.3 [Caenorhabditis elegans] 0.0
blast CAA91538 Hypothetical protein T01H10.3 [Caenorhabditis elegans] ref|NP_510025.2| T01H10.3 [Caenorhabditis elegans] 1.0E-163
blast CAA91536 Hypothetical protein T01H10.1 [Caenorhabditis elegans] ref|NP_510023.2| T01H10.1 [Caenorhabditis elegans] 1.0E-139
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.7E-38
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.1E-27
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.7E-38
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 6.1E-36
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510024.2 3 260-282,321-343,374-396
T01H10.2 3 260-282,321-343,374-396
GENEFINDER00000038729 11 274-296,303-322,337-359,642-664,674-691,704-726,758-780,994-1016,1026-1043,1055-1077,1109-1131
Sequence
Target Sequence 
>C. ELEGANS:192358_AT
gattacatatccgtgcgagtttcatcaagttgtccgatgaatgtctacaaattcccattc
gattatcaaacctgtcagatcaaattttgtcttcctattttcaattctgttgaaatacaa
atttttaatgagatctatgtcggtgtacttatgtctgatttgtgggaaacgatgggaaat
tctgaatggaagctgaccaacttgagtaatcgtgttgagaccttacagtacaatgatgga
tttggaaacctagatttgggtatttttgaaataactataaaacggaacccactctactac
atatacatgattatttttccatccttcattattaatgttgtgtctataattggagttttt
ctgaaaggcgcagataaaatgtcaaggctcaacgttggtctcacaaacattatgacaatg
acatttatactaggtgtcatggctgacaaaattccgagaaccggcacaattccaatgctt
ggtgtctatatcattgtgaatcttgcaataatgattattgctattggaattgttacaatg
atcactgaactgcgtcactgg

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GATTACATATCCGTGCGAGTTTCAT 52 431 373 Antisense
GTGCGAGTTTCATCAAGTTGTCCGA 291 479 385 Antisense
TCCCATTCGATTATCAAACCTGTCA 693 595 425 Antisense
GATCAAATTTTGTCTTCCTATTTTC 140 421 450 Antisense
GATCTATGTCGGTGTACTTATGTCT 589 419 504 Antisense
GAAGCTGACCAACTTGAGTAATCGT 577 341 561 Antisense
AATCGTGTTGAGACCTTACAGTACA 534 167 580 Antisense
GAACCCACTCTACTACATATACATG 455 347 657 Antisense
TGTCAAGGCTCAACGTTGGTCTCAC 613 557 752 Antisense
GAACCGGCACAATTCCAATGCTTGG 55 347 830 Antisense
AATGATCACTGAACTGCGTCACTGG 703 163 909 Antisense
Sequence Source Affymetrix Proprietary Database