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[192334_s_at] nicotinic acetylcholine receptor /// nicotinic acetylcholine receptor

Description T01H10.6 /REP_DB=WormBase Gene ID /WP=CE03605 /TR=Q22085 /GB=CAA91541.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
Cluster 6grp_total > 20      4grp_total > 06      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 60
1 2 3 4 range
A 4.9
(3)
A 		1.8
(-3)
A 		3.4
(0.1)
A 		4.8
(2.8)
A 		3
B 17
(0.9)
A 		2.5
(-3)
A 		24.8
(3)
A 		21.7
(2.2)
A 		22
C 21.8
(-1)
A 		2.4
(-3)
A 		2.7
(-3)
A 		61.6
(3)
A 		59
avr 14.6
(-0.3) 		2.2
(-3) 		10.3
(-1.2) 		29.4
(3) 		27

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 20
1 2 3 4 5 6 range
A 4.2
(-2)
A 		20.9
(3)
A 		18.5
(2.3)
A 		1
(-3)
A 		6
(-1.5)
A 		5.6
(-1.6)
A 		20
B 9.9
(1.3)
A 		13.5
(3)
A 		2.9
(-2.1)
A 		2.2
(-2.4)
A 		1.3
(-2.9)
A 		1
(-3)
A 		13
C 1.2
(-3)
A 		5.1
(-1.6)
A 		1.4
(-2.9)
A 		18.4
(3)
A 		1.1
(-3)
A 		1.9
(-2.7)
A 		17
avr 5.1
(-1.7) 		13.2
(3) 		7.6
(-0.2) 		7.2
(-0.5) 		2.8
(-3) 		2.8
(-3) 		10
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 10
1 2 3 4 range
A 1.8
(3)
A 		0.4
(-3)
A 		0.9
(-0.9)
A 		0.7
(-1.7)
A 		1
B 5.4
(2.6)
A 		0.6
(-3)
A 		5.7
(3)
A 		4.6
(1.7)
A 		5
C 7.2
(1)
A 		0.7
(-3)
A 		0.9
(-2.9)
A 		10.4
(3)
A 		10
avr 4.8
(2.5) 		0.6
(-3) 		2.5
(-0.5) 		5.2
(3) 		5

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 7
1 2 3 4 5 6 range
A 0.8
(-2.5)
A 		7.4
(3)
A 		4
(0.2)
A 		0.2
(-3)
A 		1.8
(-1.7)
A 		1.4
(-2)
A 		7
B 3.4
(1.4)
A 		4.5
(3)
A 		0.7
(-2.6)
A 		0.6
(-2.7)
A 		0.5
(-2.9)
A 		0.4
(-3)
A 		4
C 0.4
(-3)
A 		1.6
(-0.8)
A 		0.4
(-3)
A 		3.7
(3)
A 		0.4
(-3)
A 		0.6
(-2.6)
A 		3
avr 1.5
(-1.9) 		4.5
(3) 		1.7
(-1.5) 		1.5
(-1.9) 		0.9
(-2.8) 		0.8
(-3) 		4
NetAffx Links Cluster Members
Consensus/Exemplar
Group Members
GeneChip Array Information
Probe Set ID 192334_s_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.17026
Sequence Type Exemplar sequence
Representative Public ID T01H10.6 NCBI
Target Description T01H10.6 /REP_DB=WormBase Gene ID /WP=CE03605 /TR=Q22085 /GB=CAA91541.1 /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_077626(11), NM_077627(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077626 NCBI Caenorhabditis elegans T01H10.5 (T01H10.5) mRNA, complete cds. 11/11 None
NM_077627 NCBI Caenorhabditis elegans T01H10.6 (T01H10.6) mRNA, complete cds. 11/11 None
GENEFINDER00000038730 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12118561:12127921:1 11/11 None
SNAP00000038724 ENSEMBL cdna:SNAP chromosome:CEL140:X:12119661:12120419:1 9/11 None
T01H10.5 ENSEMBL cdna:known chromosome:CEL140:X:12118561:12120582:1 gene:T01H10.5 11/11 None
T01H10.6 ENSEMBL cdna:known chromosome:CEL140:X:12121506:12124969:1 gene:T01H10.6 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000038725 4/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12122154-12124806(+) 100.0 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor
nicotinic acetylcholine receptor
Ensembl T01H10.5
T01H10.6
Entrez Gene 187975 Entrez gene
187976 Entrez gene
SwissProt Q22083 EMBL-EBI
Q22085 EMBL-EBI
WormBase CE36664 Wormbase
CE36665 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 CAA91539 Hypothetical protein T01H10.5 [Caenorhabditis elegans] ref|NP_510027.2| T01H10.5 [Caenorhabditis elegans] 0.0
blast CAA91541 Hypothetical protein T01H10.6 [Caenorhabditis elegans] ref|NP_510028.2| T01H10.6 [Caenorhabditis elegans] 0.0
blast CAA91540 Hypothetical protein T01H10.7 [Caenorhabditis elegans] ref|NP_510029.2| T01H10.7 [Caenorhabditis elegans] 0.0
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.7E-26
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 7.6E-27
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 1.1E-19
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 8.5E-4
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 2.8E-43
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 5.8E-4
Trans Membrane
ID Number Of Domains Domain Boundaries
NP_510027.2 4 262-284,293-312,322-344,376-398
NP_510028.2 4 262-284,293-312,322-344,376-398
T01H10.5 4 262-284,293-312,322-344,376-398
T01H10.6 4 262-284,293-312,322-344,376-398
GENEFINDER00000038730 12 262-284,293-312,322-344,374-396,411-433,790-812,822-839,851-873,1172-1194,1203-1220,1235-1257,1278-1300
SNAP00000038724 3 46-68,77-96,106-128
Sequence
Target Sequence 
>C. ELEGANS:192334_S_AT
gtttacctatattcaacatacggcaagtcaaaattctcaacgaaatttatgaaggtatcc
tgcaagaaaaaataatcaaaactatgggaaactccgaatggaaagttgtcagtcttacta
atcgtgtggagcagctgaagtatgatgacgattacggaaatatggatttggcagtttttg
aaattacaataagaagaaatccactgtactacatctacatgatagttttcccttcttttg
tcataaatggaatttcaatagttggtattttcttgaagagtgccgacaaaatgtcaaagc
ttaacgttggtctcacaaacataatgaccatgacatttatcctcggagtgatggctgata
agataccaagaaccggaagcattccattacttggaatttacattattataaatcttctaa
ttatgataattgccattacagttgttgttctaatcactgaacttcgccaatgggctgtgc
cc

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
GTTTACCTATATTCAACATACGGCA 608 449 332 Antisense
TACGGCAAGTCAAAATTCTCAACGA 291 647 350 Antisense
GTCAGTCTTACTAATCGTGTGGAGC 324 467 439 Antisense
GGAGCAGCTGAAGTATGATGACGAT 227 521 459 Antisense
GAAATCCACTGTACTACATCTACAT 590 361 527 Antisense
TACATGATAGTTTTCCCTTCTTTTG 706 643 547 Antisense
TGTCAAAGCTTAACGTTGGTCTCAC 295 557 623 Antisense
GACCATGACATTTATCCTCGGAGTG 405 383 657 Antisense
AATTGCCATTACAGTTGTTGTTCTA 427 177 759 Antisense
TCTAATCACTGAACTTCGCCAATGG 689 613 780 Antisense
TGAACTTCGCCAATGGGCTGTGCCC 574 571 789 Antisense
Sequence Source Affymetrix Proprietary Database