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[192295_at] nicotinic acetylcholine receptor

Description T01H10.3 /REP_DB=WormBase Gene ID /WP=CE03602 /TR=Q22081 /GB=CAA91538.1 /SUBMIT=HINXTON /CHR=X /FEA=Sanger Annotation /DEF=nicotinic acetylcholine receptor
Cluster 6grp_total > 51      4grp_total > 14      6grp_total_sub > Hat      

Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 57
1 2 3 4 range
A 46.8
(2.2)
A 		3
(-3)
A 		42.7
(1.7)
A 		53.6
(3)
A 		51
B 37.8
(1.3)
A 		49.2
(2.9)
A 		7.1
(-3)
A 		49.6
(3)
A 		43
C 45.1
(0.4)
A 		25.4
(-3)
A 		37.8
(-0.8)
A 		59.9
(3)
P 		35
avr 43.2
(0.6) 		25.9
(-3) 		29.2
(-2.3) 		54.4
(3) 		29

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 75
1 2 3 4 5 6 range
A 41.6
(3)
A 		14.1
(-2.6)
A 		37.1
(2.1)
A 		38.5
(2.4)
A 		12
(-3)
A 		35.1
(1.7)
A 		30
B 23.2
(-0.7)
A 		48.3
(3)
A 		42.8
(2.2)
A 		7.5
(-3)
A 		27.5
(-0.1)
A 		12.7
(-2.2)
A 		41
C 16.2
(-1.9)
A 		45
(0.4)
A 		57.1
(1.3)
P 		77.6
(3)
A 		17.9
(-1.8)
A 		3.1
(-3)
A 		75
avr 27
(-0.9) 		35.8
(0.9) 		45.7
(3) 		41.2
(2.1) 		19.1
(-2.6) 		17
(-3) 		29
No Scale
G range Absolute graph Relative graph Expression Table Dauer Comp.
4 16
1 2 3 4 range
A 17
(3)
A 		0.7
(-3)
A 		11.2
(0.9)
A 		7.8
(-0.4)
A 		16
B 12.1
(2.9)
A 		12.2
(3)
A 		1.6
(-3)
A 		10.6
(2.1)
A 		11
C 14.9
(3)
A 		7.3
(-3)
A 		13.2
(1.7)
A 		10.1
(-0.8)
P 		8
avr 14.7
(3) 		6.7
(-3) 		8.7
(-1.5) 		9.5
(-0.9) 		8

1 : 1 state (S1, L1)
2 : dauer (ST, LT)
6 15
1 2 3 4 5 6 range
A 7.7
(1)
A 		5
(-1.6)
A 		8.1
(1.4)
A 		9.8
(3)
A 		3.6
(-3)
A 		8.5
(1.7)
A 		6
B 8.1
(-0.4)
A 		16.1
(3)
A 		10.4
(0.6)
A 		2
(-3)
A 		11.2
(0.9)
A 		4.7
(-1.9)
A 		14
C 6
(-1)
A 		13.7
(2.2)
A 		14.5
(2.5)
P 		15.6
(3)
A 		5.8
(-1.1)
A 		1.1
(-3)
A 		15
avr 7.3
(-0.8) 		11.6
(3) 		11
(2.5) 		9.1
(0.8) 		6.9
(-1.1) 		4.8
(-3) 		7
NetAffx Links Cluster Members
Consensus/Exemplar
GeneChip Array Information
Probe Set ID 192295_at
GeneChip Array C. elegans Genome Array
Organism Common Name Nematode
Probe Design Information
Transcript ID(Array Design) affy.Ce.16648
Sequence Type Exemplar sequence
Representative Public ID T01H10.3 NCBI
Target Description T01H10.3 /REP_DB=WormBase Gene ID /WP=CE03602 /TR=Q22081 /GB=CAA91538.1 /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_077624(11)
Transcript Assignments
Representative
Transcript		 Description Matching Probes Related Probesets by Grade
NM_077624 NCBI Caenorhabditis elegans T01H10.3 (T01H10.3) mRNA, complete cds. 11/11 None
GENEFINDER00000038729 ENSEMBL cdna:GeneFinder chromosome:CEL140:X:12109059:12115844:1 11/11 None
T01H10.3 ENSEMBL cdna:known chromosome:CEL140:X:12114245:12115844:1 gene:T01H10.3 11/11 None
Annotation Notes
Cross Hybridizing mRNA Matched Probes Nature of Assignment Related Probesets by Grade
SNAP00000038722 8/11 Cross Hyb Matching Probes None
Genomic Alignment of Consensus/Exemplar Sequence
Assembly Wormbase March 2004
Alignment(s)
Position Identity Coverage Cytoband
chrX:12114491-12115844(+) 100.0 100.0
Public Domain and Genome References
Gene Title nicotinic acetylcholine receptor
Ensembl T01H10.3
Entrez Gene 187973 Entrez gene
SwissProt Q22081 EMBL-EBI
WormBase CE36663 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 CAA91538 Hypothetical protein T01H10.3 [Caenorhabditis elegans] ref|NP_510025.2| T01H10.3 [Caenorhabditis elegans] 0.0
blast CAA91536 Hypothetical protein T01H10.1 [Caenorhabditis elegans] ref|NP_510023.2| T01H10.1 [Caenorhabditis elegans] 0.0
blast CAA91537 Hypothetical protein T01H10.2 [Caenorhabditis elegans] ref|NP_510024.2| T01H10.2 [Caenorhabditis elegans] 0.0
blast CAA91537 Hypothetical protein T01H10.2 [Caenorhabditis elegans] ref|NP_510024.2| T01H10.2 [Caenorhabditis elegans] 1.0E-172
blast CAA91536 Hypothetical protein T01H10.1 [Caenorhabditis elegans] ref|NP_510023.2| T01H10.1 [Caenorhabditis elegans] 1.0E-145
Protein Domains
Database ID Description E-Value
Pfam IPR006202 EMBL-EBI Neurotransmitter-gated ion-channel ligand binding domain 6.1E-36
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_510025.2 4 260-282,292-309,321-343,375-397
T01H10.3 4 260-282,292-309,321-343,375-397
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:192295_AT
tttgtattcctgttttcactagttatgaagttgaaatattcaatgagatttatgcaggtg
tgcttacatcaaatgcgtggaaaactatgggaaactcagaatggaaccttgtaaatttaa
cacatcgagttgaaactttaaagtatgatgatggatttgcaaatcttgatttgggtactt
ttgaaatcaaaataaggagaaacccactttactacatatatatgattatctttccatcct
tcattattaatgttgtttctattattggagtttttcttaagggcgctgataaaatgtcga
agctcaacgtgggtcttactaacatcatgacgatgactttcatactgggcgtcatggcgg
acaaaattcctcgcacaggaacaatcccacttcttggtgtctacattattacaaatcttg
tcattatgctgattgcaattggaattgtgacagtgatcaatgagttgcggaggtgtgcat
ctccagttttgaaacggaagcaaacgaagttaagcagaaaactagagtcttttatcggga
caccgctcgagtacacctgcgccgcaattctcgaactactgacatttgccaattttgct

BLASTn GenBank NR
Probe Info
Probe Sequence(5'-3') Probe X Probe Y Probe Interrogation
Position 		Strandedness
TTTGTATTCCTGTTTTCACTAGTTA 155 667 380 Antisense
GGAGAAACCCACTTTACTACATATA 153 519 575 Antisense
GGAGTTTTTCTTAAGGGCGCTGATA 320 517 646 Antisense
GTCGAAGCTCAACGTGGGTCTTACT 152 475 675 Antisense
GACTTTCATACTGGGCGTCATGGCG 77 373 714 Antisense
GGCGGACAAAATTCCTCGCACAGGA 456 541 735 Antisense
AATCCCACTTCTTGGTGTCTACATT 81 169 762 Antisense
GGTGTGCATCTCCAGTTTTGAAACG 511 499 851 Antisense
TTATCGGGACACCGCTCGAGTACAC 470 671 911 Antisense
GCCGCAATTCTCGAACTACTGACAT 475 285 940 Antisense
ACTACTGACATTTGCCAATTTTGCT 442 101 954 Antisense
Sequence Source Affymetrix Proprietary Database